Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 36 of 93
Found at i:14060271 original size:14 final size:13
Alignment explanation
Indices: 14060238--14060271 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
14060228 CAAAAATTAT
14060238 AATTTATAAAAAA
1 AATTTATAAAAAA
*
14060251 AACTTATAAAAAAA
1 AATTTAT-AAAAAA
14060265 AATTTAT
1 AATTTAT
14060272 CAAACAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (13 bp):
AATTTATAAAAAA
Found at i:14061042 original size:19 final size:20
Alignment explanation
Indices: 14061013--14061050 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
14061003 CAAATAATAT
*
14061013 TTTATTTTTTATTATTTTTC
1 TTTATTTTTTAATATTTTTC
14061033 TTTA-TTTTTAATATTTTT
1 TTTATTTTTTAATATTTTT
14061051 TTAAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTATTTTTTAATATTTTTC
Found at i:14061051 original size:20 final size:20
Alignment explanation
Indices: 14061013--14061050 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14061003 CAAATAATAT
*
14061013 TTTATTTTTTATTATTTTTC
1 TTTATTTTTAATTATTTTTC
14061033 TTTATTTTTAA-TATTTTT
1 TTTATTTTTAATTATTTTT
14061051 TTAAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTATTTTTAATTATTTTTC
Found at i:14069516 original size:9 final size:9
Alignment explanation
Indices: 14069478--14069509 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
14069468 GTTGCAGCAC
14069478 TGGCGATGG
1 TGGCGATGG
14069487 TGGCGATGG
1 TGGCGATGG
14069496 TGGCGATGG
1 TGGCGATGG
14069505 TGGCG
1 TGGCG
14069510 GATGTGGAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.09, C:0.12, G:0.56, T:0.22
Consensus pattern (9 bp):
TGGCGATGG
Found at i:14070495 original size:29 final size:30
Alignment explanation
Indices: 14070426--14070501 Score: 100
Period size: 30 Copynumber: 2.5 Consensus size: 30
14070416 GATCACGTTC
14070426 AATAAAAGTTTTTATATTTTTATTTTAAGTCA
1 AATAAAA--TTTTATATTTTTATTTTAAGTCA
*
14070458 AATAAAATTTTATATTTTTATTTTGAA-TTA
1 AATAAAATTTTATATTTTTATTTT-AAGTCA
*
14070488 AATAAATTTTTATA
1 AATAAAATTTTATA
14070502 ACTAATACTT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
30 32 0.78
31 2 0.05
32 7 0.17
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (30 bp):
AATAAAATTTTATATTTTTATTTTAAGTCA
Found at i:14089425 original size:162 final size:163
Alignment explanation
Indices: 14089148--14089459 Score: 545
Period size: 162 Copynumber: 1.9 Consensus size: 163
14089138 CAACCAAAAA
* * * * *
14089148 TCTTCTTTTCAAAGCAAAACCAGTCATTCCAAATCCATATTAAGAAAAATTAAAGATTATGTAAA
1 TCTTCGTTCCAAAGCAAAACCAATCATACCAAATCCATATTAAGAAAAATAAAAGATTATGTAAA
* *
14089213 GTAAAAGCAGCAAAATCATATTTGGTTAAAAATGAGCAAATGTTTAAATTTTAACACCAATCAAG
66 GTAAAAGCAGCAAAATCATATTGGGTTAAAAATAAGCAAATGTTTAAATTTTAACACCAATCAAG
14089278 ACATAAAAAACCATCCTTTTTTATTAACGCATG
131 ACATAAAAAACCATCCTTTTTTATTAACGCATG
*
14089311 TCTTCGTTCCAAAGCAAAACCAATCATACCAAATTCATATTAAG-AAAATAAAAGATTATGTAAA
1 TCTTCGTTCCAAAGCAAAACCAATCATACCAAATCCATATTAAGAAAAATAAAAGATTATGTAAA
14089375 GTAAAAGCAGCAAAATCATATTGGGTTAAAAATAAGCAAATGTTTAAATTTTAACACCAATCAAG
66 GTAAAAGCAGCAAAATCATATTGGGTTAAAAATAAGCAAATGTTTAAATTTTAACACCAATCAAG
14089440 ACATAAAAAACCATCCTTTT
131 ACATAAAAAACCATCCTTTT
14089460 CTGTTAATGT
Statistics
Matches: 141, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
162 102 0.72
163 39 0.28
ACGTcount: A:0.46, C:0.16, G:0.10, T:0.29
Consensus pattern (163 bp):
TCTTCGTTCCAAAGCAAAACCAATCATACCAAATCCATATTAAGAAAAATAAAAGATTATGTAAA
GTAAAAGCAGCAAAATCATATTGGGTTAAAAATAAGCAAATGTTTAAATTTTAACACCAATCAAG
ACATAAAAAACCATCCTTTTTTATTAACGCATG
Found at i:14097696 original size:26 final size:26
Alignment explanation
Indices: 14097667--14097717 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
14097657 CCAAATTGTA
14097667 CAGACCTAGAAGCCAAACTGAAATCC
1 CAGACCTAGAAGCCAAACTGAAATCC
14097693 CAGACCTAGAAGCCAAACTGAAATC
1 CAGACCTAGAAGCCAAACTGAAATC
14097718 TTCTATGGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.43, C:0.29, G:0.16, T:0.12
Consensus pattern (26 bp):
CAGACCTAGAAGCCAAACTGAAATCC
Found at i:14100566 original size:31 final size:31
Alignment explanation
Indices: 14100530--14100592 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
14100520 TAACCAACTT
14100530 AGTTGACTTTGAATTTAATAGATTTTAAAAG
1 AGTTGACTTTGAATTTAATAGATTTTAAAAG
14100561 AGTTGACTTTGAATTTAATAGATTTTAAAAG
1 AGTTGACTTTGAATTTAATAGATTTTAAAAG
14100592 A
1 A
14100593 TCTCATTCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.40, C:0.03, G:0.16, T:0.41
Consensus pattern (31 bp):
AGTTGACTTTGAATTTAATAGATTTTAAAAG
Found at i:14101971 original size:39 final size:39
Alignment explanation
Indices: 14101887--14101977 Score: 101
Period size: 39 Copynumber: 2.3 Consensus size: 39
14101877 TGATGAATTA
* * *
14101887 GATTTATGAATGATTTGATTTATACATATGATGAACATT
1 GATTTATGAATGATTTAATTTATACATATAATGAACATC
* * * * * *
14101926 GTTTTATCAATGTTTTAATTTATTCATATAATGGATATC
1 GATTTATGAATGATTTAATTTATACATATAATGAACATC
14101965 GATTTATGAATGA
1 GATTTATGAATGA
14101978 AACGAAATCT
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.46
Consensus pattern (39 bp):
GATTTATGAATGATTTAATTTATACATATAATGAACATC
Found at i:14103018 original size:26 final size:25
Alignment explanation
Indices: 14102968--14103028 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
14102958 ACTTATTAAT
* *
14102968 TTACTATATATTATTAATAATAATA
1 TTACTATATATTAATAATAACAATA
14102993 TTACTATAGTA-TAATACATAACAATA
1 TTACTATA-TATTAATA-ATAACAATA
*
14103019 -TACTAAATAT
1 TTACTATATAT
14103029 AGTACACTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
24 2 0.07
25 18 0.60
26 10 0.33
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.41
Consensus pattern (25 bp):
TTACTATATATTAATAATAACAATA
Found at i:14103191 original size:14 final size:14
Alignment explanation
Indices: 14103174--14103222 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
14103164 ATATACTTAT
14103174 TAATATACCATATA
1 TAATATACCATATA
14103188 TAATATACCATATA
1 TAATATACCATATA
* *
14103202 TTGATATGCCATAT-
1 -TAATATACCATATA
14103216 TAATATA
1 TAATATA
14103223 TAGTATAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 5 0.17
14 14 0.47
15 11 0.37
ACGTcount: A:0.45, C:0.12, G:0.04, T:0.39
Consensus pattern (14 bp):
TAATATACCATATA
Found at i:14105585 original size:68 final size:69
Alignment explanation
Indices: 14105505--14105644 Score: 273
Period size: 68 Copynumber: 2.0 Consensus size: 69
14105495 TTTATTTGTA
14105505 AATATATTATAATATTTAGAATAATATTGATAAATGGAAATAGCCAAATAAATGG-AAAATAATT
1 AATATATTATAATATTTAGAATAATATTGATAAATGGAAATAGCCAAATAAATGGAAAAATAATT
14105569 ATAT
66 ATAT
14105573 AATATATTATAATATTTAGAATAATATTGATAAATGGAAATAGCCAAATAAATGGAAAAATAATT
1 AATATATTATAATATTTAGAATAATATTGATAAATGGAAATAGCCAAATAAATGGAAAAATAATT
14105638 ATAT
66 ATAT
14105642 AAT
1 AAT
14105645 GCTACTGTTT
Statistics
Matches: 71, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
68 55 0.77
69 16 0.23
ACGTcount: A:0.54, C:0.03, G:0.10, T:0.34
Consensus pattern (69 bp):
AATATATTATAATATTTAGAATAATATTGATAAATGGAAATAGCCAAATAAATGGAAAAATAATT
ATAT
Found at i:14107816 original size:15 final size:16
Alignment explanation
Indices: 14107796--14107827 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
14107786 TTTTATAATG
14107796 ATTA-TTTATTTTTAA
1 ATTATTTTATTTTTAA
14107811 ATTATTTTATTTTTAA
1 ATTATTTTATTTTTAA
14107827 A
1 A
14107828 CATTAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
ATTATTTTATTTTTAA
Found at i:14112187 original size:45 final size:45
Alignment explanation
Indices: 14112123--14112211 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
14112113 GATACTTAAA
* *
14112123 CATGAGGATTGGGAAAATGTTAAGAGGTTACATATTTTCTTGAAG
1 CATGAGGATTGAGAAAATGTTAAGAGGTTAAATATTTTCTTGAAG
14112168 CATGAGGATTGAGAAAATGTTAAGAGGTTAAATATTTTCTTGAA
1 CATGAGGATTGAGAAAATGTTAAGAGGTTAAATATTTTCTTGAA
14112212 ACATTTTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.34
Consensus pattern (45 bp):
CATGAGGATTGAGAAAATGTTAAGAGGTTAAATATTTTCTTGAAG
Found at i:14118687 original size:28 final size:28
Alignment explanation
Indices: 14118656--14118780 Score: 148
Period size: 27 Copynumber: 4.5 Consensus size: 28
14118646 AAAGGCTGTA
*
14118656 CTTGATTCTTGAAAAAGTTGAGGTTATG
1 CTTGATCCTTGAAAAAGTTGAGGTTATG
14118684 CTTGATCCTTGAAAAAGTTGAGGTTATG
1 CTTGATCCTTGAAAAAGTTGAGGTTATG
* **
14118712 TTTGATCCTTG-AAAAG-CAATGGTTATG
1 CTTGATCCTTGAAAAAGTTGA-GGTTATG
** *
14118739 CTTGATCCTTGAAAAA-CAGTGGTTATG
1 CTTGATCCTTGAAAAAGTTGAGGTTATG
*
14118766 CTTGATCCATGAAAA
1 CTTGATCCTTGAAAA
14118781 GTAGTGATTT
Statistics
Matches: 85, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
26 1 0.01
27 43 0.51
28 41 0.48
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.35
Consensus pattern (28 bp):
CTTGATCCTTGAAAAAGTTGAGGTTATG
Found at i:14118741 original size:55 final size:54
Alignment explanation
Indices: 14118677--14118781 Score: 156
Period size: 55 Copynumber: 1.9 Consensus size: 54
14118667 AAAAAGTTGA
** * *
14118677 GGTTATGCTTGATCCTTGAAAAAGTTGAGGTTATGTTTGATCCTTGAAAAGCAAT
1 GGTTATGCTTGATCCTTGAAAAA-CAGAGGTTATGCTTGATCCATGAAAAGCAAT
*
14118732 GGTTATGCTTGATCCTTGAAAAACAGTGGTTATGCTTGATCCATGAAAAG
1 GGTTATGCTTGATCCTTGAAAAACAGAGGTTATGCTTGATCCATGAAAAG
14118782 TAGTGATTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
54 22 0.49
55 23 0.51
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.34
Consensus pattern (54 bp):
GGTTATGCTTGATCCTTGAAAAACAGAGGTTATGCTTGATCCATGAAAAGCAAT
Found at i:14121947 original size:31 final size:29
Alignment explanation
Indices: 14121912--14121980 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
14121902 CTAGTTATTA
*
14121912 TGGATATTCAATATATCTTGCTTAGCTGCTG
1 TGGATATT--ATATATCTTGCTTAGCTACTG
* *
14121943 TGGATATTGTATATCTTGTTTAGCTACTG
1 TGGATATTATATATCTTGCTTAGCTACTG
14121972 TGGATATTA
1 TGGATATTA
14121981 AAAATAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 26 0.76
31 8 0.24
ACGTcount: A:0.23, C:0.12, G:0.20, T:0.45
Consensus pattern (29 bp):
TGGATATTATATATCTTGCTTAGCTACTG
Found at i:14121959 original size:29 final size:29
Alignment explanation
Indices: 14121923--14121979 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
14121913 GGATATTCAA
*
14121923 TATATCTTGCTTAGCTGCTGTGGATATTG
1 TATATCTTGCTTAGCTACTGTGGATATTG
*
14121952 TATATCTTGTTTAGCTACTGTGGATATT
1 TATATCTTGCTTAGCTACTGTGGATATT
14121980 AAAAATAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.19, C:0.12, G:0.21, T:0.47
Consensus pattern (29 bp):
TATATCTTGCTTAGCTACTGTGGATATTG
Found at i:14132689 original size:2 final size:2
Alignment explanation
Indices: 14132682--14132712 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
14132672 GGCTTTTGCT
*
14132682 TC TC TC TC CC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
14132713 TCTTTACTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:14133824 original size:2 final size:2
Alignment explanation
Indices: 14133817--14133854 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
14133807 TGAGAAAATA
14133817 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14133855 TATCAAGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14135051 original size:21 final size:20
Alignment explanation
Indices: 14135012--14135051 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
14135002 AGATAGAAGA
*
14135012 AATGTTTTAATTTTTATTAT
1 AATGTTTTAATTATTATTAT
*
14135032 AATGTTTTGTATTATTATTA
1 AATGTTTT-AATTATTATTA
14135052 CTAGAAGTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.62
Consensus pattern (20 bp):
AATGTTTTAATTATTATTAT
Found at i:14138301 original size:59 final size:59
Alignment explanation
Indices: 14138203--14138317 Score: 153
Period size: 59 Copynumber: 1.9 Consensus size: 59
14138193 AACTTTGTAG
*
14138203 AGATAATTATTAACAGCTTGAATCTTCTGAAACAATGCATTAAGGACAATTCTTAGTAA
1 AGATAATTATTAACAGCTTGAATCTTCTGAAACAATGCATCAAGGACAATTCTTAGTAA
* * * *
14138262 AGATAATTATTAACATG-TTGGATTTTGTGAAA-AATTGCATCCAGGACAATTCTTAG
1 AGATAATTATTAACA-GCTTGAATCTTCTGAAACAA-TGCATCAAGGACAATTCTTAG
14138318 CTCAAAATGT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
58 2 0.04
59 46 0.94
60 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (59 bp):
AGATAATTATTAACAGCTTGAATCTTCTGAAACAATGCATCAAGGACAATTCTTAGTAA
Found at i:14139555 original size:29 final size:29
Alignment explanation
Indices: 14139523--14139592 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
14139513 GTGAAAAGGC
* * *
14139523 ACAAAAGAAGAAGTTGTACATGAACATGT
1 ACAAAAGAAGAAGTTATACATAAACAGGT
* *
14139552 ACAATAA-AAGAAGTTATACGTAAATAGGT
1 ACAA-AAGAAGAAGTTATACATAAACAGGT
14139581 ACAAAAGAAGAA
1 ACAAAAGAAGAA
14139593 AACGTATATA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
28 2 0.06
29 30 0.88
30 2 0.06
ACGTcount: A:0.54, C:0.09, G:0.19, T:0.19
Consensus pattern (29 bp):
ACAAAAGAAGAAGTTATACATAAACAGGT
Found at i:14140168 original size:30 final size:30
Alignment explanation
Indices: 14140113--14140187 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
14140103 TGCTATGGCA
* * *
14140113 CTTTATGTAGTAACACCTTATATTGTGATG
1 CTTTATGTTGTAACACCTTAGATTGTAATG
* * *
14140143 TTTTATGTTGTAACACTTTGGATTGTAATG
1 CTTTATGTTGTAACACCTTAGATTGTAATG
14140173 CTTTA-GCTTGTAACA
1 CTTTATG-TTGTAACA
14140188 TTGCAGACAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
29 1 0.03
30 36 0.97
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.45
Consensus pattern (30 bp):
CTTTATGTTGTAACACCTTAGATTGTAATG
Found at i:14140895 original size:15 final size:16
Alignment explanation
Indices: 14140875--14140904 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14140865 TTAATTCTTA
14140875 TTTGTA-ATTTTTTTG
1 TTTGTATATTTTTTTG
14140890 TTTGTATATTTTTTT
1 TTTGTATATTTTTTT
14140905 AATTCTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (16 bp):
TTTGTATATTTTTTTG
Found at i:14140911 original size:38 final size:40
Alignment explanation
Indices: 14140860--14140943 Score: 136
Period size: 38 Copynumber: 2.1 Consensus size: 40
14140850 AATTGTAGAT
14140860 TTTTTTTAATTCTTATTTGT-AATTT-TTTTGTTTGTATA
1 TTTTTTTAATTCTTATTTGTGAATTTGTTTTGTTTGTATA
*
14140898 TTTTTTTAATTCTTATTTGTGATTTTGTTTTGTTTGTATA
1 TTTTTTTAATTCTTATTTGTGAATTTGTTTTGTTTGTATA
*
14140938 GTTTTT
1 TTTTTT
14140944 ATGCTGTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
38 20 0.48
39 4 0.10
40 18 0.43
ACGTcount: A:0.15, C:0.02, G:0.11, T:0.71
Consensus pattern (40 bp):
TTTTTTTAATTCTTATTTGTGAATTTGTTTTGTTTGTATA
Found at i:14140954 original size:39 final size:38
Alignment explanation
Indices: 14140862--14140954 Score: 109
Period size: 38 Copynumber: 2.4 Consensus size: 38
14140852 TTGTAGATTT
* *
14140862 TTTTTAATTCTTATTTGTAATTTTTTTGTTTGTATATT
1 TTTTTAATGCTTATTTGTAATTTTTTTGTTTGTATATG
* *
14140900 TTTTTAATTCTTATTTGTGATTTTGTTTTGTTTGTATA-G
1 TTTTTAATGCTTATTTGT-AATTT-TTTTGTTTGTATATG
14140939 TTTTT-ATGCTGTATTT
1 TTTTTAATGCT-TATTT
14140955 TTCTTTTAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
38 22 0.45
39 14 0.29
40 13 0.27
ACGTcount: A:0.16, C:0.03, G:0.12, T:0.69
Consensus pattern (38 bp):
TTTTTAATGCTTATTTGTAATTTTTTTGTTTGTATATG
Found at i:14142332 original size:105 final size:102
Alignment explanation
Indices: 14142223--14142476 Score: 253
Period size: 102 Copynumber: 2.5 Consensus size: 102
14142213 GAAAGATGAA
* *
14142223 TGATGAATTATGGTCAAAAAATGAGCGATAAA-TCTTGCAACCAATAGAAAAAAAATATTATTGC
1 TGATGAATTATGGTCAAAGAATGAGCGATAAAGT-TTGCAACCAATAG---AAAAATATCATTG-
* * *
14142287 AATCAAAA-TATGAGCAGTAAAGTTTGC-GACTGAAGTAAAAG
61 AAGCAAAAGTATGAGCAGTAAAGTTTACAG-CTGAAATAAAAG
* * * * * * * * *
14142328 TGATGAGTTATGGTTAAAGAATGGGCAATAAAGTTTACAACCAATAGCATAATGTCATTGTAGCA
1 TGATGAATTATGGTCAAAGAATGAGCGATAAAGTTTGCAACCAATAGAAAAATATCATTGAAGCA
* **
14142393 AAAGTATGAGCGGTAAAGTTTACAGCTGAAATAAGGG
66 AAAGTATGAGCAGTAAAGTTTACAGCTGAAATAAAAG
* **
14142430 TGATGAACTATGACCAAAGAATGAGCGATAAAGTTTGCAACCAATAG
1 TGATGAATTATGGTCAAAGAATGAGCGATAAAGTTTGCAACCAATAG
14142477 TATAATATAA
Statistics
Matches: 121, Mismatches: 25, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
101 6 0.05
102 74 0.61
103 1 0.01
105 39 0.32
106 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.25
Consensus pattern (102 bp):
TGATGAATTATGGTCAAAGAATGAGCGATAAAGTTTGCAACCAATAGAAAAATATCATTGAAGCA
AAAGTATGAGCAGTAAAGTTTACAGCTGAAATAAAAG
Found at i:14142435 original size:102 final size:102
Alignment explanation
Indices: 14142290--14142500 Score: 237
Period size: 102 Copynumber: 2.1 Consensus size: 102
14142280 TTATTGCAAT
* * ** *** *
14142290 CAAAA-TATGAGCAGTAAAGTTTGCGACTGAAGTAAAAGTGATGAGTTATGGTTAAAGAATGGGC
1 CAAAAGTATGAGCAGTAAAGTTTACGACTGAAATAAAAGTGATGAACTATGACCAAAGAATGAGC
* * *
14142354 AATAAAGTTTACAACCAATAGCATAATGTCATTGTAG
66 AATAAAGTTTACAACCAATAGCATAATATAATTATAG
* **
14142391 CAAAAGTATGAGCGGTAAAGTTTAC-AGCTGAAATAAGGGTGATGAACTATGACCAAAGAATGAG
1 CAAAAGTATGAGCAGTAAAGTTTACGA-CTGAAATAAAAGTGATGAACTATGACCAAAGAATGAG
* * *
14142455 CGATAAAGTTTGCAACCAATAGTATAATATAATTATAG
65 CAATAAAGTTTACAACCAATAGCATAATATAATTATAG
*
14142493 CCAAAGTA
1 CAAAAGTA
14142501 CAAGCGATAA
Statistics
Matches: 90, Mismatches: 18, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
101 6 0.07
102 84 0.93
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.25
Consensus pattern (102 bp):
CAAAAGTATGAGCAGTAAAGTTTACGACTGAAATAAAAGTGATGAACTATGACCAAAGAATGAGC
AATAAAGTTTACAACCAATAGCATAATATAATTATAG
Found at i:14143185 original size:109 final size:109
Alignment explanation
Indices: 14142994--14143203 Score: 341
Period size: 109 Copynumber: 1.9 Consensus size: 109
14142984 TCTTTCTATT
* **
14142994 GAAGTGAGTAGCTCTCTTTTGTCTAAGAACCATATTATTGGTTTTTCGTGCGGCTTCCACCAAGG
1 GAAGTGAGTAGCTCTCTTTTGTCTAAGAACCATATTATTGGTTTTTCATGCACCTTCCACCAAGG
*
14143059 TAGCAAAGGTTGAAAGAGGTAAATTCTCCAAGCATATTATTCTC
66 TAACAAAGGTTGAAAGAGGTAAATTCTCCAAGCATATTATTCTC
* **
14143103 GAAGTGAGTAGCTCTCTTTTGTCTACGAACCATATTATTGGTCTTTT-ATGCACCTTCCACTGAG
1 GAAGTGAGTAGCTCTCTTTTGTCTAAGAACCATATTATTGGT-TTTTCATGCACCTTCCACCAAG
14143167 GTAACAAAGGTTGAAAGAGGTAAATTCTCCAAGCATA
65 GTAACAAAGGTTGAAAGAGGTAAATTCTCCAAGCATA
14143204 GCCTATACTC
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
109 89 0.96
110 4 0.04
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (109 bp):
GAAGTGAGTAGCTCTCTTTTGTCTAAGAACCATATTATTGGTTTTTCATGCACCTTCCACCAAGG
TAACAAAGGTTGAAAGAGGTAAATTCTCCAAGCATATTATTCTC
Found at i:14144658 original size:29 final size:29
Alignment explanation
Indices: 14144573--14144660 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
14144563 AGAGATATAC
* *
14144573 GTGAAAAGGCACAAGAG-AAAAAGTTGTAT
1 GTGAACAGGTACAAGAGAAAAAAG-TGTAT
* * *
14144602 ATGAACAGGTACAAGAGAAGAAATTGTAT
1 GTGAACAGGTACAAGAGAAAAAAGTGTAT
**
14144631 GTGAATGGGTACAAGAGAAAAAAGTGTAT
1 GTGAACAGGTACAAGAGAAAAAAGTGTAT
14144660 G
1 G
14144661 CAAATAAATA
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
29 44 0.92
30 4 0.08
ACGTcount: A:0.47, C:0.06, G:0.28, T:0.19
Consensus pattern (29 bp):
GTGAACAGGTACAAGAGAAAAAAGTGTAT
Found at i:14144984 original size:35 final size:34
Alignment explanation
Indices: 14144929--14145029 Score: 148
Period size: 35 Copynumber: 2.9 Consensus size: 34
14144919 CTGGTTGTTT
*
14144929 TGCGTGAAGTGATGTTTCACTTATTGTAGTTCTTC
1 TGCGTGAAGTAATG-TTCACTTATTGTAGTTCTTC
14144964 TGCGTGAAGTAATGTGTCACTTATTGTAGTTCTTC
1 TGCGTGAAGTAATGT-TCACTTATTGTAGTTCTTC
* *
14144999 TGCGAGAAGTAATGCTTCACTTATTCTAGTT
1 TGCGTGAAGTAATG-TTCACTTATTGTAGTT
14145030 GTTTTCGTTA
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
34 1 0.02
35 59 0.97
36 1 0.02
ACGTcount: A:0.21, C:0.15, G:0.22, T:0.43
Consensus pattern (34 bp):
TGCGTGAAGTAATGTTCACTTATTGTAGTTCTTC
Found at i:14145705 original size:76 final size:77
Alignment explanation
Indices: 14145554--14145761 Score: 247
Period size: 76 Copynumber: 2.7 Consensus size: 77
14145544 CATCAAAACC
* *
14145554 CATAATCAAATCTACTAAATATAGTTAAAATACCCAAAAAAATAAAAACTTCAAAAAAAAGTTCA
1 CATAATCAAATCTACTAAATATAGATAAAATACCCAAAAAAACAAAAACTTCAAAAAAAAGTTCA
14145619 GGTTTTGATTTG
66 GGTTTTGATTTG
* * * ** * * *
14145631 CATAATCAAATCTATTATATATAGATAAAATATCC-ATTAAACAAAAACTTTAAAGAAAAGTTTA
1 CATAATCAAATCTACTAAATATAGATAAAATACCCAAAAAAACAAAAACTTCAAAAAAAAGTTCA
*
14145695 GGTTTTGATTTT
66 GGTTTTGATTTG
* * * * ** *
14145707 CATAATCACATCTACTAAAGATAGCTAAAATGCTTAAAAAAATAAAAACTTCAAA
1 CATAATCAAATCTACTAAATATAGATAAAATACCCAAAAAAACAAAAACTTCAAA
14145762 GAAAGTTTGG
Statistics
Matches: 106, Mismatches: 24, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
76 60 0.57
77 46 0.43
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.30
Consensus pattern (77 bp):
CATAATCAAATCTACTAAATATAGATAAAATACCCAAAAAAACAAAAACTTCAAAAAAAAGTTCA
GGTTTTGATTTG
Found at i:14154336 original size:12 final size:12
Alignment explanation
Indices: 14154317--14154350 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
14154307 ATTAATATTT
14154317 AAAA-AAATAAA
1 AAAATAAATAAA
14154328 AAAATAAATAAA
1 AAAATAAATAAA
*
14154340 AAATTAAATAA
1 AAAATAAATAA
14154351 NNNNNNNNNN
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (12 bp):
AAAATAAATAAA
Found at i:14154557 original size:22 final size:21
Alignment explanation
Indices: 14154532--14154597 Score: 53
Period size: 24 Copynumber: 3.0 Consensus size: 21
14154522 AATTAATCAT
14154532 AATAATATTTTAAATTAAATAA
1 AATAATATTTTAAATTAAAT-A
* *
14154554 AATATTAATATTTAAATTATTAATT
1 AATAAT-AT-TTTAAATTA--AATA
*
14154579 ATTAATATTTT-AATTAAAT
1 AATAATATTTTAAATTAAAT
14154598 TCTAGATTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
20 3 0.08
22 10 0.28
23 5 0.14
24 11 0.31
25 4 0.11
26 3 0.08
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
AATAATATTTTAAATTAAATA
Found at i:14154574 original size:15 final size:15
Alignment explanation
Indices: 14154551--14154618 Score: 50
Period size: 15 Copynumber: 4.3 Consensus size: 15
14154541 TTAAATTAAA
*
14154551 TAAAATATTAATATT
1 TAAATTATTAATATT
14154566 TAAATTATTAAT-TAT
1 TAAATTATTAATAT-T
14154581 TAATATT-TTAATTAAATT
1 TAA-ATTATTAA-T--ATT
*
14154599 CTAGATTATTAATATT
1 -TAAATTATTAATATT
14154615 TAAA
1 TAAA
14154619 AAATTTAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 16
0.69 0.05 0.26
Matches are distributed among these distances:
14 1 0.02
15 22 0.52
16 7 0.17
18 5 0.12
19 7 0.17
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (15 bp):
TAAATTATTAATATT
Found at i:14154618 original size:22 final size:22
Alignment explanation
Indices: 14154556--14154618 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 22
14154546 TTAAATAAAA
*
14154556 TATTAATATTTAAATTATTAAT
1 TATTAATATTTAAATTACTAAT
*
14154578 TATTAATATTTTAATTAAATTCTAGAT
1 TATTAATATTTAAATT--A--CTA-AT
14154605 TATTAATATTTAAA
1 TATTAATATTTAAA
14154619 AAATTTAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
22 15 0.45
24 1 0.03
26 2 0.06
27 15 0.45
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
TATTAATATTTAAATTACTAAT
Found at i:14158465 original size:17 final size:17
Alignment explanation
Indices: 14158433--14158465 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
14158423 ATTAACTTTA
14158433 TATTTTTAAAATATAAT
1 TATTTTTAAAATATAAT
14158450 TATTATTTAAAA-ATAA
1 TATT-TTTAAAATATAA
14158466 ATAAATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TATTTTTAAAATATAAT
Found at i:14168220 original size:3 final size:3
Alignment explanation
Indices: 14168207--14168238 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
14168197 AGAGTAAACA
*
14168207 AAG ACG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
14168239 AATGGAGGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.03, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:14180245 original size:10 final size:10
Alignment explanation
Indices: 14180229--14180269 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
14180219 TCCTGAGATG
14180229 TATATACATA
1 TATATACATA
*
14180239 GATATACATA
1 TATATACATA
*
14180249 TATATATATA
1 TATATACATA
*
14180259 TATATATATA
1 TATATACATA
14180269 T
1 T
14180270 GTTTATAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (10 bp):
TATATACATA
Found at i:14180255 original size:4 final size:4
Alignment explanation
Indices: 14180229--14180269 Score: 55
Period size: 4 Copynumber: 10.2 Consensus size: 4
14180219 TCCTGAGATG
* * *
14180229 TATA TACA TAGA TATA CATA TATA TATA TATA TATA TATA T
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA T
14180270 GTTTATAAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (4 bp):
TATA
Found at i:14180255 original size:6 final size:6
Alignment explanation
Indices: 14180229--14180269 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
14180219 TCCTGAGATG
* * *
14180229 TATATA CATAGA TATACA TATATA TATATA TATATA TATAT
1 TATATA TATATA TATATA TATATA TATATA TATATA TATAT
14180270 GTTTATAAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (6 bp):
TATATA
Found at i:14198334 original size:42 final size:42
Alignment explanation
Indices: 14198282--14198366 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
14198272 ATACTCGTAA
* *
14198282 GAGGAAGAGATTAGTTTTGAAGTAGGAGTTTGAGTTTGGGTG
1 GAGGAAGAGATTAGTTTTGAAGTAAGAATTTGAGTTTGGGTG
* *
14198324 GAGGAGGAGATTAGTTTTGAGGTAAGAATTTGAGTTTGGGTG
1 GAGGAAGAGATTAGTTTTGAAGTAAGAATTTGAGTTTGGGTG
14198366 G
1 G
14198367 GATGGACCTG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.26, C:0.00, G:0.41, T:0.33
Consensus pattern (42 bp):
GAGGAAGAGATTAGTTTTGAAGTAAGAATTTGAGTTTGGGTG
Found at i:14198695 original size:31 final size:31
Alignment explanation
Indices: 14198657--14198716 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
14198647 AAAAATAAGG
* *
14198657 ACTAAATTGAATAAAACTCTATAACATAGAA
1 ACTAAATTAAACAAAACTCTATAACATAGAA
*
14198688 ACTAAATTAAACAAAACTCTATAATATAG
1 ACTAAATTAAACAAAACTCTATAACATAG
14198717 GGGTTTTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.55, C:0.13, G:0.05, T:0.27
Consensus pattern (31 bp):
ACTAAATTAAACAAAACTCTATAACATAGAA
Found at i:14199132 original size:15 final size:15
Alignment explanation
Indices: 14199091--14199133 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
14199081 GGTATATTAA
*
14199091 TGAGAATGTGATTGT
1 TGAGAATGTAATTGT
14199106 TG-GAAATGTAATTGT
1 TGAG-AATGTAATTGT
*
14199121 TGAGAATATAATT
1 TGAGAATGTAATT
14199134 TTGTAGCGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 1 0.04
15 22 0.92
16 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.40
Consensus pattern (15 bp):
TGAGAATGTAATTGT
Found at i:14199359 original size:21 final size:22
Alignment explanation
Indices: 14199335--14199375 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
14199325 CCTTTAAGCA
*
14199335 ATTAAAATAATAA-ATAATAAC
1 ATTAAAAAAATAACATAATAAC
14199356 ATTAAAAAAATAACATAATA
1 ATTAAAAAAATAACATAATA
14199376 TTTTTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (22 bp):
ATTAAAAAAATAACATAATAAC
Found at i:14199962 original size:28 final size:28
Alignment explanation
Indices: 14199909--14199962 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
14199899 AAAAGGCAAA
* *
14199909 AAGGAAAAAGGAGAAGAAAGCCAGAAAG
1 AAGGAAAAAAGAGAAGAAAGCAAGAAAG
*
14199937 AAGGAAAAAAGTGAA-AAAGGCAAGAA
1 AAGGAAAAAAGAGAAGAAA-GCAAGAA
14199963 GGAGAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 3 0.14
28 19 0.86
ACGTcount: A:0.63, C:0.06, G:0.30, T:0.02
Consensus pattern (28 bp):
AAGGAAAAAAGAGAAGAAAGCAAGAAAG
Found at i:14200792 original size:31 final size:31
Alignment explanation
Indices: 14200757--14200819 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
14200747 AGCAATACAA
*
14200757 AGTTTTGTTCAATTA-AGTTTTTGTACTATAG
1 AGTTTTGTTCAATTAGA-TCTTTGTACTATAG
*
14200788 AGTTTTGTTCAATTTGATCTTTGTACTATAG
1 AGTTTTGTTCAATTAGATCTTTGTACTATAG
14200819 A
1 A
14200820 ACTATGTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 28 0.97
32 1 0.03
ACGTcount: A:0.25, C:0.08, G:0.16, T:0.51
Consensus pattern (31 bp):
AGTTTTGTTCAATTAGATCTTTGTACTATAG
Found at i:14202026 original size:14 final size:14
Alignment explanation
Indices: 14202007--14202045 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
14201997 ATAACACTTC
14202007 TCTACTCTTATTTT
1 TCTACTCTTATTTT
14202021 TCTACTCTTATTTT
1 TCTACTCTTATTTT
14202035 TCTACTCTTAT
1 TCTACTCTTAT
14202046 CTTGCTTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (14 bp):
TCTACTCTTATTTT
Found at i:14217488 original size:54 final size:54
Alignment explanation
Indices: 14217403--14217635 Score: 349
Period size: 54 Copynumber: 4.3 Consensus size: 54
14217393 TGTAACCGTG
* * * * *
14217403 CATGAGCTGGGTGAGATATGGTGTCCGGCTATGTGCATGATGTGGTGGAATACA
1 CATGAGCTGGGTGAGATGTGGTGTCCGGCTATGTGCACGATGCGGTGGGATGCA
* *
14217457 CATGAGCTGGGTGAGATGTGGTGTCCAGCTATGTGCACGATGTGGTGGGATGCA
1 CATGAGCTGGGTGAGATGTGGTGTCCGGCTATGTGCACGATGCGGTGGGATGCA
* *
14217511 CATGAGTTGGGTGAGATGTGGTGTCCGGCAATGTGCACGATGCGGTGGGATGCA
1 CATGAGCTGGGTGAGATGTGGTGTCCGGCTATGTGCACGATGCGGTGGGATGCA
* * *
14217565 CATGAGCTGGGTGCGATGTGGTGTCCGGCTATGTGCACTATGCGCTGGGATGCA
1 CATGAGCTGGGTGAGATGTGGTGTCCGGCTATGTGCACGATGCGGTGGGATGCA
*
14217619 CATGAGTTGGGTGAGAT
1 CATGAGCTGGGTGAGAT
14217636 AAAATGTTTT
Statistics
Matches: 163, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 163 1.00
ACGTcount: A:0.19, C:0.15, G:0.40, T:0.26
Consensus pattern (54 bp):
CATGAGCTGGGTGAGATGTGGTGTCCGGCTATGTGCACGATGCGGTGGGATGCA
Found at i:14221283 original size:2 final size:2
Alignment explanation
Indices: 14221271--14221317 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
14221261 TGTAACAAGG
14221271 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14221312 AT AT AT
1 AT AT AT
14221318 TAGAGGTATG
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14224231 original size:24 final size:24
Alignment explanation
Indices: 14224204--14224260 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
14224194 AGCTGGGTGA
14224204 GATGTGGTGTCCGGCTATGTGCAC
1 GATGTGGTGTCCGGCTATGTGCAC
14224228 GATGTGGTGTCCGGCTATGTGCAC
1 GATGTGGTGTCCGGCTATGTGCAC
*
14224252 GATGCGGTG
1 GATGTGGTG
14224261 GGATGCACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.12, C:0.19, G:0.40, T:0.28
Consensus pattern (24 bp):
GATGTGGTGTCCGGCTATGTGCAC
Found at i:14224279 original size:78 final size:78
Alignment explanation
Indices: 14224150--14224314 Score: 294
Period size: 78 Copynumber: 2.1 Consensus size: 78
14224140 AGCTAGGTGA
* * *
14224150 GATGTGGTGTCCGGTTATGTGCACGATGTGGTGGGATGCACATGAGCTGGGTGAGATGTGGTGTC
1 GATGTGGTGTCCGGCTATGTGCACGATGCGGTGGGATGCACATGAGCTGGGTGAGATATGGTGTC
14224215 CGGCTATGTGCAC
66 CGGCTATGTGCAC
14224228 GATGTGGTGTCCGGCTATGTGCACGATGCGGTGGGATGCACATGAGCTGGGTGAGATATGGTGTC
1 GATGTGGTGTCCGGCTATGTGCACGATGCGGTGGGATGCACATGAGCTGGGTGAGATATGGTGTC
14224293 CGGCTATGTGCAC
66 CGGCTATGTGCAC
*
14224306 AATGTGGTG
1 GATGTGGTG
14224315 GGATGCACAT
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 83 1.00
ACGTcount: A:0.16, C:0.16, G:0.41, T:0.27
Consensus pattern (78 bp):
GATGTGGTGTCCGGCTATGTGCACGATGCGGTGGGATGCACATGAGCTGGGTGAGATATGGTGTC
CGGCTATGTGCAC
Found at i:14224315 original size:54 final size:54
Alignment explanation
Indices: 14224232--14224339 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
14224222 GTGCACGATG
*
14224232 TGGTGTCCGGCTATGTGCACGATGCGGTGGGATGCACATGAGCTGGGTGAGATA
1 TGGTGTCCGGCTATGTGCACAATGCGGTGGGATGCACATGAGCTGGGTGAGATA
*
14224286 TGGTGTCCGGCTATGTGCACAATGTGGTGGGATGCACATGAGCTGGGTGAGATA
1 TGGTGTCCGGCTATGTGCACAATGCGGTGGGATGCACATGAGCTGGGTGAGATA
14224340 AAATGATTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.19, C:0.16, G:0.40, T:0.25
Consensus pattern (54 bp):
TGGTGTCCGGCTATGTGCACAATGCGGTGGGATGCACATGAGCTGGGTGAGATA
Found at i:14226956 original size:21 final size:21
Alignment explanation
Indices: 14226930--14226996 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
14226920 GTAGAGCAGC
14226930 TGAGAGAGAGGGGAAGTCGGG
1 TGAGAGAGAGGGGAAGTCGGG
*
14226951 TGAGAGAGCA---G-AG-CGGT
1 TGAGAGAG-AGGGGAAGTCGGG
14226968 TGAGAGAGAGGGGAAGAT-GGG
1 TGAGAGAGAGGGGAAG-TCGGG
14226989 TGAGAGAG
1 TGAGAGAG
14226997 TGGCTGAGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
16 1 0.03
17 11 0.30
18 2 0.05
19 2 0.05
20 2 0.05
21 18 0.49
22 1 0.03
ACGTcount: A:0.31, C:0.04, G:0.54, T:0.10
Consensus pattern (21 bp):
TGAGAGAGAGGGGAAGTCGGG
Found at i:14226957 original size:19 final size:19
Alignment explanation
Indices: 14226933--14226996 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
14226923 GAGCAGCTGA
14226933 GAGAGAGGGGAAGTCGGGT
1 GAGAGAGGGGAAGTCGGGT
** *
14226952 GAGAGAGCAG-AG-CGGTTGA
1 GAGAGAGGGGAAGTCGG--GT
14226971 GAGAGAGGGGAAGAT-GGGT
1 GAGAGAGGGGAAG-TCGGGT
14226990 GAGAGAG
1 GAGAGAG
14226997 TGGCTGAGAG
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
17 3 0.09
18 2 0.06
19 25 0.74
20 2 0.06
21 2 0.06
ACGTcount: A:0.31, C:0.05, G:0.55, T:0.09
Consensus pattern (19 bp):
GAGAGAGGGGAAGTCGGGT
Found at i:14227010 original size:33 final size:35
Alignment explanation
Indices: 14226927--14227028 Score: 138
Period size: 33 Copynumber: 2.9 Consensus size: 35
14226917 GATGTAGAGC
14226927 AGCTGAGAGAGAGGGGAAG-TCGGGTGAGAGAGCAG
1 AGCTGAGAGAGAGGGGAAGAT-GGGTGAGAGAGCAG
*
14226962 AGCGGTTGAGAGAGAGGGGAAGATGGGTGAGAGAG-TG
1 AGC---TGAGAGAGAGGGGAAGATGGGTGAGAGAGCAG
14226999 -GCTGAGAGAGAGGGGAAGATGGGTGAGAGA
1 AGCTGAGAGAGAGGGGAAGATGGGTGAGAGA
14227029 AAGAGGGAAC
Statistics
Matches: 62, Mismatches: 1, Indels: 10
0.85 0.01 0.14
Matches are distributed among these distances:
33 28 0.45
35 3 0.05
36 2 0.03
37 1 0.02
38 27 0.44
39 1 0.02
ACGTcount: A:0.31, C:0.05, G:0.53, T:0.11
Consensus pattern (35 bp):
AGCTGAGAGAGAGGGGAAGATGGGTGAGAGAGCAG
Found at i:14232191 original size:42 final size:42
Alignment explanation
Indices: 14232144--14232237 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
14232134 CGATGGACAA
* * *
14232144 CGGAAAGAATCCAATCAAAGAGGAAGAAAAGGTTTTATCTTT
1 CGGAAAGAATCCAATCAAAGAAGAAAAAAAGGTTTTATCTTC
* ** * *
14232186 CGGAAAAAAGGCAATCAAAGAAGAAAAAAATGTTTTTTCTTC
1 CGGAAAGAATCCAATCAAAGAAGAAAAAAAGGTTTTATCTTC
14232228 CGGAAAGAAT
1 CGGAAAGAAT
14232238 TATGAGCCTA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.22
Consensus pattern (42 bp):
CGGAAAGAATCCAATCAAAGAAGAAAAAAAGGTTTTATCTTC
Found at i:14237369 original size:41 final size:41
Alignment explanation
Indices: 14237312--14237391 Score: 160
Period size: 41 Copynumber: 2.0 Consensus size: 41
14237302 CAAGATGAAT
14237312 CGCTAAACTCTATTACAAAGATTTGAGTGAAGTGCAAAATG
1 CGCTAAACTCTATTACAAAGATTTGAGTGAAGTGCAAAATG
14237353 CGCTAAACTCTATTACAAAGATTTGAGTGAAGTGCAAAA
1 CGCTAAACTCTATTACAAAGATTTGAGTGAAGTGCAAAA
14237392 AGGATTGAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (41 bp):
CGCTAAACTCTATTACAAAGATTTGAGTGAAGTGCAAAATG
Found at i:14238278 original size:20 final size:20
Alignment explanation
Indices: 14238250--14238289 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14238240 CTTCACTCTG
* *
14238250 TTAATCGATTAAGTAAGACT
1 TTAACCGATTAAATAAGACT
14238270 TTAACCGATTAAATAAGACT
1 TTAACCGATTAAATAAGACT
14238290 ATCTTTGATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (20 bp):
TTAACCGATTAAATAAGACT
Found at i:14239752 original size:14 final size:14
Alignment explanation
Indices: 14239733--14239759 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14239723 GTTCATTGCC
14239733 TATGTAGACTTGGT
1 TATGTAGACTTGGT
14239747 TATGTAGACTTGG
1 TATGTAGACTTGG
14239760 CGTTGGTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.30, T:0.41
Consensus pattern (14 bp):
TATGTAGACTTGGT
Found at i:14242661 original size:68 final size:68
Alignment explanation
Indices: 14242466--14242732 Score: 286
Period size: 68 Copynumber: 3.9 Consensus size: 68
14242456 CATGTTTGGT
*
14242466 ATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGATTAAGTT
1 ATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGATTAAGTA
14242531 TGC
66 TGC
* * * * *
14242534 ATGATGTATACTATAAGATTGTGTATATTATGTAAATTCCATATACCATATGA-AGTGATTAAGT
1 ATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGA-TGATTAAGT
14242598 ATGC
65 ATGC
* * * * * ** * *
14242602 ATGATAAATGTCATGAGATTATGCATATGATGTATATTCCATATATTACATGAGATGATTGAA-A
1 ATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGATT-AAGT
**
14242666 AAAC
65 ATGC
* * *** * *
14242670 ATGATGAATGCCATGAGATTATGTATAGGATGTGTTTTCCATATACCTTATGAGATGAGTAAG
1 ATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGATTAAG
14242733 CTTGTATGTG
Statistics
Matches: 162, Mismatches: 33, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
67 3 0.02
68 156 0.96
69 3 0.02
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.36
Consensus pattern (68 bp):
ATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGATTAAGTA
TGC
Found at i:14247056 original size:19 final size:19
Alignment explanation
Indices: 14247014--14247056 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
14247004 TCCTTCAACC
*
14247014 TTAACTGATTAAAATTAGCT
1 TTAACTAATTAAAATTA-CT
14247034 TTAACTAATTAAAAATT-CT
1 TTAACTAATT-AAAATTACT
14247053 TTAA
1 TTAA
14247057 ATTTGATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
20 9 0.43
21 6 0.29
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (19 bp):
TTAACTAATTAAAATTACT
Found at i:14252895 original size:60 final size:60
Alignment explanation
Indices: 14252815--14253040 Score: 274
Period size: 60 Copynumber: 3.8 Consensus size: 60
14252805 CATCATCACT
* **
14252815 TACTTGTGGGAACTGCCCACGCCA-TTATATATAAATCGAGGCTTCAGGTCCCCATTTACC
1 TACTCGTGGGAACTGCCCACGCCACCCA-ATATAAATCGAGGCTTCAGGTCCCCATTTACC
* * * * *
14252875 TACTCGTGGGAGCTGACCACGTCACCCAATATAAATCGGGGCTTCAGGTCCCCCTTTACC
1 TACTCGTGGGAACTGCCCACGCCACCCAATATAAATCGAGGCTTCAGGTCCCCATTTACC
* * * * * * **
14252935 TACTCGTGGGAATTGCCCATGCCACCCAATATGAATCAAAGCTTTAGGTCCCTTTTTACC
1 TACTCGTGGGAACTGCCCACGCCACCCAATATAAATCGAGGCTTCAGGTCCCCATTTACC
* *
14252995 TACTCGTGGGAACTGCCCACGCCACCCAATATGAATCGGGGCTTCA
1 TACTCGTGGGAACTGCCCACGCCACCCAATATAAATCGAGGCTTCA
14253041 AGTCTCCCTT
Statistics
Matches: 139, Mismatches: 26, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
60 138 0.99
61 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.26
Consensus pattern (60 bp):
TACTCGTGGGAACTGCCCACGCCACCCAATATAAATCGAGGCTTCAGGTCCCCATTTACC
Found at i:14254429 original size:14 final size:14
Alignment explanation
Indices: 14254412--14254451 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 14
14254402 GCTTTCCTCT
14254412 TTCTCTCTTTCTTC
1 TTCTCTCTTTCTTC
14254426 TTCTC-CTATTC-T-
1 TTCTCTCT-TTCTTC
14254438 TTCTCTCTTTCTTC
1 TTCTCTCTTTCTTC
14254452 CTTGGCCAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 8
0.73 0.00 0.27
Matches are distributed among these distances:
12 8 0.36
13 6 0.27
14 8 0.36
ACGTcount: A:0.03, C:0.35, G:0.00, T:0.62
Consensus pattern (14 bp):
TTCTCTCTTTCTTC
Found at i:14254438 original size:95 final size:95
Alignment explanation
Indices: 14254316--14254487 Score: 247
Period size: 95 Copynumber: 1.8 Consensus size: 95
14254306 TTCCCGTTTT
* *
14254316 TTTCTCTCTTTCTTCTGCTACTTTTCTTTCTCTCTTCCTTCTTTAGCC-GACGACTTTCCCCTTT
1 TTTCTCTCTTTCTTCTGCTACTATTCTTTCTCTCTTCCTTCCTTAGCCAG-CGACTTTCCCCTTT
14254380 TTCTCTTTCTTTTTTTTTTTCAGCTTTCCTC
65 TTCTCTTTCTTTTTTTTTTTCAGCTTTCCTC
* * * * * *
14254411 TTTCTCTCTTTCTTCTTCTCCTATTCTTTCTCTCTTTCTTCCTTGGCCAGTGGCTTTCCCCTTTT
1 TTTCTCTCTTTCTTCTGCTACTATTCTTTCTCTCTTCCTTCCTTAGCCAGCGACTTTCCCCTTTT
*
14254476 TCTGTTTCTTTT
66 TCTCTTTCTTTT
14254488 ATGCCCGACA
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
95 66 0.99
96 1 0.01
ACGTcount: A:0.04, C:0.31, G:0.06, T:0.58
Consensus pattern (95 bp):
TTTCTCTCTTTCTTCTGCTACTATTCTTTCTCTCTTCCTTCCTTAGCCAGCGACTTTCCCCTTTT
TCTCTTTCTTTTTTTTTTTCAGCTTTCCTC
Found at i:14255114 original size:19 final size:20
Alignment explanation
Indices: 14255090--14255127 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
14255080 TTAATATTTT
14255090 AATATTATTTTA-TTAAAAA
1 AATATTATTTTATTTAAAAA
14255109 AATATTATTTTATTTAAAA
1 AATATTATTTTATTTAAAA
14255128 TTTTTCACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AATATTATTTTATTTAAAAA
Found at i:14262788 original size:21 final size:21
Alignment explanation
Indices: 14262762--14262802 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
14262752 GTGGCACGTA
*
14262762 GGATTTTAGTTTTTGTTGTTG
1 GGATTTTAGTTCTTGTTGTTG
14262783 GGATTTTAGTTCTTGTTGTT
1 GGATTTTAGTTCTTGTTGTT
14262803 TAGGGAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.10, C:0.02, G:0.27, T:0.61
Consensus pattern (21 bp):
GGATTTTAGTTCTTGTTGTTG
Found at i:14264191 original size:227 final size:227
Alignment explanation
Indices: 14263793--14264210 Score: 593
Period size: 227 Copynumber: 1.8 Consensus size: 227
14263783 ATAATAATAT
* * * * *
14263793 ACTAGAATGTGGCCCTCACCATGTTGGGGCAAACTATTCTCTTTTAAATTTTAGTAAACTCGTTC
1 ACTAGAATGTGACCCCCACCATGTTAGGGCAAACAATTCTCTTTTAAATTTTAATAAACTCGTTC
* * * * * * *
14263858 ACGTGTAAACGATATTTTAATTTGACTCACTCATGGGTCGTGGTTTTTCCCTTTGCAAACGCAGA
66 ACGGGAAAAAGACATTTTAATTTAACTCACTCATGAGCCGTGGTTTTTCCCTTTGCAAACGCAGA
* * * *
14263923 TAGAAATTTAAAAGTCTCAGCTTGAAAACATGGCTTTTCTTTAGGCTGACACATGGCAAAATGAA
131 TAGAAATATAAAAGTCTCAACTTGAAAACATGACCTTTCTTTAGGCTGACACATGGCAAAATGAA
14263988 CAGTTTCTTTGGAGTTTCCTTTTAAGTATGTA
196 CAGTTTCTTTGGAGTTTCCTTTTAAGTATGTA
*
14264020 ACTAGAATGTGACCCCCACCATGTTAGGGTAAACAATTCTCTTTTAAATTTTAATAAACTCGTTC
1 ACTAGAATGTGACCCCCACCATGTTAGGGCAAACAATTCTCTTTTAAATTTTAATAAACTCGTTC
* * * ** * *
14264085 ATGGGAAAAAGACATTTTAATTTAACTCTCTCATTAGCCGTGGTTTTTTTCTTTGCAAACTCTGA
66 ACGGGAAAAAGACATTTTAATTTAACTCACTCATGAGCCGTGGTTTTTCCCTTTGCAAACGCAGA
* * *
14264150 TGGAAATATAAAAGTTTCAACTTGAAAACATGACCTTTCTTTAGGCTGACACATGGTAAAA
131 TAGAAATATAAAAGTCTCAACTTGAAAACATGACCTTTCTTTAGGCTGACACATGGCAAAA
14264211 CGAGGAAGCC
Statistics
Matches: 164, Mismatches: 27, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
227 164 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (227 bp):
ACTAGAATGTGACCCCCACCATGTTAGGGCAAACAATTCTCTTTTAAATTTTAATAAACTCGTTC
ACGGGAAAAAGACATTTTAATTTAACTCACTCATGAGCCGTGGTTTTTCCCTTTGCAAACGCAGA
TAGAAATATAAAAGTCTCAACTTGAAAACATGACCTTTCTTTAGGCTGACACATGGCAAAATGAA
CAGTTTCTTTGGAGTTTCCTTTTAAGTATGTA
Found at i:14267302 original size:6 final size:6
Alignment explanation
Indices: 14267293--14267359 Score: 88
Period size: 6 Copynumber: 11.8 Consensus size: 6
14267283 CCTCTCTGTC
14267293 TCTCTG TCTCTG --TCTG TCTCTG TCTCTG TCTCTG --TCTG TCTCTG
1 TCTCTG TCTCTG TCTCTG TCTCTG TCTCTG TCTCTG TCTCTG TCTCTG
* *
14267337 TCTCTG TCTCTG TTTCTC TCTCT
1 TCTCTG TCTCTG TCTCTG TCTCT
14267360 TTATATATAA
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
4 8 0.15
6 46 0.85
ACGTcount: A:0.00, C:0.33, G:0.15, T:0.52
Consensus pattern (6 bp):
TCTCTG
Found at i:14267312 original size:16 final size:16
Alignment explanation
Indices: 14267285--14267345 Score: 90
Period size: 16 Copynumber: 3.9 Consensus size: 16
14267275 CTTTATCTCC
14267285 TCTCTGTCTC--TCTG
1 TCTCTGTCTCTGTCTG
* *
14267299 TCTCTGTCTGTCTCTG
1 TCTCTGTCTCTGTCTG
14267315 TCTCTGTCTCTGTCTG
1 TCTCTGTCTCTGTCTG
14267331 TCTCTGTCTCTGTCT
1 TCTCTGTCTCTGTCT
14267346 CTGTTTCTCT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
14 9 0.21
16 33 0.79
ACGTcount: A:0.00, C:0.33, G:0.16, T:0.51
Consensus pattern (16 bp):
TCTCTGTCTCTGTCTG
Found at i:14267321 original size:22 final size:22
Alignment explanation
Indices: 14267293--14267349 Score: 114
Period size: 22 Copynumber: 2.6 Consensus size: 22
14267283 CCTCTCTGTC
14267293 TCTCTGTCTCTGTCTGTCTCTG
1 TCTCTGTCTCTGTCTGTCTCTG
14267315 TCTCTGTCTCTGTCTGTCTCTG
1 TCTCTGTCTCTGTCTGTCTCTG
14267337 TCTCTGTCTCTGT
1 TCTCTGTCTCTGT
14267350 TTCTCTCTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.00, C:0.32, G:0.18, T:0.51
Consensus pattern (22 bp):
TCTCTGTCTCTGTCTGTCTCTG
Found at i:14267356 original size:22 final size:22
Alignment explanation
Indices: 14267284--14267357 Score: 103
Period size: 22 Copynumber: 3.4 Consensus size: 22
14267274 TCTTTATCTC
* *
14267284 CTCTCTGTCTCTCTGTCTCTGT
1 CTCTCTCTGTCTCTGTCTCTGT
*
14267306 CTGTCTCTGTCTCTGTCTCTGT
1 CTCTCTCTGTCTCTGTCTCTGT
*
14267328 CTGTCTCTGTCTCTGTCTCTGT
1 CTCTCTCTGTCTCTGTCTCTGT
*
14267350 TTCTCTCT
1 CTCTCTCT
14267358 CTTTATATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.00, C:0.34, G:0.15, T:0.51
Consensus pattern (22 bp):
CTCTCTCTGTCTCTGTCTCTGT
Found at i:14273490 original size:15 final size:15
Alignment explanation
Indices: 14273470--14273515 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
14273460 ATATTTTGTA
*
14273470 GGGAATATGATTGCT
1 GGGAATGTGATTGCT
*
14273485 GGGAATGTGATTGTT
1 GGGAATGTGATTGCT
*
14273500 GGAAATGTGATTGCT
1 GGGAATGTGATTGCT
14273515 G
1 G
14273516 CGAAGATAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.24, C:0.04, G:0.37, T:0.35
Consensus pattern (15 bp):
GGGAATGTGATTGCT
Found at i:14274063 original size:19 final size:20
Alignment explanation
Indices: 14274029--14274069 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 20
14274019 TTTCAAACTA
14274029 ATTACTATCGTTTCTTAATTG
1 ATTACTATC-TTTCTTAATTG
14274050 ATTACTAT-TTTCTTAATTG
1 ATTACTATCTTTCTTAATTG
14274069 A
1 A
14274070 AGCCATCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.60
21 8 0.40
ACGTcount: A:0.27, C:0.12, G:0.07, T:0.54
Consensus pattern (20 bp):
ATTACTATCTTTCTTAATTG
Found at i:14274368 original size:42 final size:41
Alignment explanation
Indices: 14274244--14274368 Score: 105
Period size: 38 Copynumber: 3.1 Consensus size: 41
14274234 TGTTCCATAA
* ** *
14274244 TAAAAAAAAGTCAAATCCCTCTCTTCTCTTTTCTAGAATTTG
1 TAAAAGAAAGTCAAATCATTCTCTTATC-TTTCTAGAATTTG
** * * *
14274286 TAAGGGAAAG-CTAAT-GTTCT-TCTAT-TTTCTAGAATCTG
1 TAAAAGAAAGTCAAATCATTCTCT-TATCTTTCTAGAATTTG
*
14274324 TAAAAGAAAGTCAAATCATTCTCTTTTCTTTCCTAGAATTTG
1 TAAAAGAAAGTCAAATCATTCTCTTATCTTT-CTAGAATTTG
14274366 TAA
1 TAA
14274369 GGGAAATCTG
Statistics
Matches: 63, Mismatches: 14, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
38 20 0.32
39 5 0.08
40 11 0.17
41 8 0.13
42 19 0.30
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (41 bp):
TAAAAGAAAGTCAAATCATTCTCTTATCTTTCTAGAATTTG
Found at i:14275182 original size:25 final size:25
Alignment explanation
Indices: 14275137--14275184 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
14275127 ATTTAATTTT
*
14275137 ATAATAATATTTATAAATATTAAAA
1 ATAATAATATCTATAAATATTAAAA
*
14275162 ATAATAATGTCTA-AAATTATTAA
1 ATAATAATATCTATAAA-TATTAA
14275185 GTGAAGAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.15
25 17 0.85
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (25 bp):
ATAATAATATCTATAAATATTAAAA
Found at i:14277452 original size:11 final size:11
Alignment explanation
Indices: 14277426--14277454 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
14277416 ACTATATAAT
14277426 AAAAA-AAAAA
1 AAAAATAAAAA
14277436 AAAAATAAAAA
1 AAAAATAAAAA
14277447 AAAAATAA
1 AAAAATAA
14277455 TATATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.93, C:0.00, G:0.00, T:0.07
Consensus pattern (11 bp):
AAAAATAAAAA
Found at i:14277595 original size:16 final size:17
Alignment explanation
Indices: 14277574--14277607 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
14277564 TTGACCATNT
14277574 AATAAA-AAAAATAAAA
1 AATAAAGAAAAATAAAA
*
14277590 AATAAAGAAAACTAAAA
1 AATAAAGAAAAATAAAA
14277607 A
1 A
14277608 TTGAGGGGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.12
Consensus pattern (17 bp):
AATAAAGAAAAATAAAA
Found at i:14282525 original size:16 final size:15
Alignment explanation
Indices: 14282492--14282526 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
14282482 ACAAATGAAC
*
14282492 TTTTATTATAAAAGA
1 TTTTATTATAAAAAA
14282507 TTTTATTATAAAAAA
1 TTTTATTATAAAAAA
*
14282522 ATTTA
1 TTTTA
14282527 ATAAGACTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (15 bp):
TTTTATTATAAAAAA
Found at i:14285201 original size:2 final size:2
Alignment explanation
Indices: 14285194--14285221 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14285184 ATGTAAAACA
14285194 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14285222 TTTTGAAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14288375 original size:2 final size:2
Alignment explanation
Indices: 14288368--14288409 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
14288358 TACTTACTAG
14288368 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14288410 ATTTAGACAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14293875 original size:25 final size:24
Alignment explanation
Indices: 14293842--14293898 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 24
14293832 TAGAATTATT
*
14293842 TTTC-TTTTTCTTTTTTTCCTTTTT
1 TTTCTTTTTTC-TTTTTTCCTTTTC
14293866 TCTTCTTTTTTCTTTTTTCCTTTTC
1 T-TTCTTTTTTCTTTTTTCCTTTTC
14293891 TTTCTTTT
1 TTTCTTTT
14293899 CTTAGGGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 8 0.27
25 16 0.53
26 6 0.20
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (24 bp):
TTTCTTTTTTCTTTTTTCCTTTTC
Found at i:14293894 original size:17 final size:15
Alignment explanation
Indices: 14293840--14293898 Score: 66
Period size: 17 Copynumber: 3.7 Consensus size: 15
14293830 TTTAGAATTA
14293840 TTTTTC-TTTTTCTT
1 TTTTTCTTTTTTCTT
14293854 TTTTTCCTTTTTTCTTCT
1 TTTTT-CTTTTTTC-T-T
14293872 TTTTTCTTTTTTCCTT
1 TTTTTCTTTTTT-CTT
14293888 TTCTTTCTTTT
1 TT-TTTCTTTT
14293899 CTTAGGGTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.13
15 1 0.03
16 9 0.23
17 17 0.44
18 7 0.18
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTTCTTTTTTCTT
Found at i:14293899 original size:32 final size:32
Alignment explanation
Indices: 14293840--14293901 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
14293830 TTTAGAATTA
**
14293840 TTTTTCTTTTTCTTTTTTTCCTTTTTTCTTCT
1 TTTTTCTTTTTCTCCTTTTCCTTTTTTCTTCT
*
14293872 TTTTTCTTTTT-TCCTTTTCTTTCTTTTCTT
1 TTTTTCTTTTTCTCCTTTTCCTT-TTTTCTT
14293902 AGGGTTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 8 0.31
32 18 0.69
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (32 bp):
TTTTTCTTTTTCTCCTTTTCCTTTTTTCTTCT
Found at i:14293901 original size:9 final size:8
Alignment explanation
Indices: 14293846--14293898 Score: 61
Period size: 8 Copynumber: 6.2 Consensus size: 8
14293836 ATTATTTTTC
14293846 TTTTTCTT
1 TTTTTCTT
*
14293854 TTTTTCCT
1 TTTTTCTT
14293862 TTTTTCTTCT
1 TTTTTC-T-T
14293872 TTTTTCTT
1 TTTTTCTT
*
14293880 TTTTCCTT
1 TTTTTCTT
14293888 TTCTTTCTT
1 TT-TTTCTT
14293897 TT
1 TT
14293899 CTTAGGGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
8 23 0.61
9 8 0.21
10 7 0.18
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTCTT
Found at i:14294208 original size:16 final size:17
Alignment explanation
Indices: 14294184--14294216 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
14294174 AACACCTTAA
*
14294184 TTAATTTAAAT-CTATT
1 TTAAATTAAATCCTATT
14294200 TTAAATTAAATCCTATT
1 TTAAATTAAATCCTATT
14294217 ACTAATTTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAAATTAAATCCTATT
Found at i:14302595 original size:137 final size:138
Alignment explanation
Indices: 14302345--14302683 Score: 572
Period size: 137 Copynumber: 2.4 Consensus size: 138
14302335 CAAAACCTAT
14302345 CTTGCACCAGGATCAGGCAATATAACTATAACAACTTGCATGGTGAAAAGTAGCTACTCCTTAGT
1 CTTGCACCAGGATCAGGCAATATAACTAT-A-AACTTGCATGGTGAAAAGTAGCTACTCCTTAGT
*
14302410 GCCAGGTATATTTTACGGAGTGCAATAACGAAGACGCAGCAAGTACCATAAAGCAAAATAGCTAC
64 GCCAGGTATATTTTACGGAGTGCAATAACGAAGACGCAGCAAGCACCATAAAGCAAAATAGCTAC
14302475 CAGAAAGAAG
129 CAGAAAGAAG
*
14302485 CTTGCACCAGGATCAGGCAATATAACTAT-AACTTGCACGGTGAAAAGTAGCTACTCCTTAGTGC
1 CTTGCACCAGGATCAGGCAATATAACTATAAACTTGCATGGTGAAAAGTAGCTACTCCTTAGTGC
14302549 CAGGTATATTTTACGGAGTGCAATAACGAAGACGCAGCAAGCACCATAAAGCAAAATAGCTACCA
66 CAGGTATATTTTACGGAGTGCAATAACGAAGACGCAGCAAGCACCATAAAGCAAAATAGCTACCA
14302614 GAAAGAAG
131 GAAAGAAG
** * * *
14302622 CTTGCACCAGGATCAGGTGATAGAACTATAACAACTTACATGGTGAAAAATAGCTACTCCTT
1 CTTGCACCAGGATCAGGCAATATAACTAT-A-AACTTGCATGGTGAAAAGTAGCTACTCCTT
14302684 TAAAGACTGG
Statistics
Matches: 188, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
137 132 0.70
140 56 0.30
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (138 bp):
CTTGCACCAGGATCAGGCAATATAACTATAAACTTGCATGGTGAAAAGTAGCTACTCCTTAGTGC
CAGGTATATTTTACGGAGTGCAATAACGAAGACGCAGCAAGCACCATAAAGCAAAATAGCTACCA
GAAAGAAG
Found at i:14309265 original size:43 final size:41
Alignment explanation
Indices: 14309183--14309265 Score: 103
Period size: 43 Copynumber: 2.0 Consensus size: 41
14309173 ACAAAACACG
* **
14309183 TTAAAGTTAAACACGAACACGATATGTTTAATATTCGTGTC
1 TTAAAGTTAAACACGAACACGATACGTTTAATACACGTGTC
* *
14309224 TTAAATTTAAAACACGTACACGTATACGTTTAATACACGTGT
1 TTAAAGTT-AAACACGAACACG-ATACGTTTAATACACGTGT
14309266 AACACGACAC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 7 0.20
42 12 0.34
43 16 0.46
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (41 bp):
TTAAAGTTAAACACGAACACGATACGTTTAATACACGTGTC
Found at i:14309308 original size:44 final size:42
Alignment explanation
Indices: 14309249--14309333 Score: 100
Period size: 44 Copynumber: 2.0 Consensus size: 42
14309239 GTACACGTAT
*
14309249 ACGTTTAATACACGTGT-AACACGACACGACACGACACGATTAAC
1 ACGTTTAATAAACGTGTCAACACG-CA--ACACGACACGATTAAC
* * *
14309293 ACGTTTATTAAACGTGTCAATATGCAACACGACACGATTAA
1 ACGTTTAATAAACGTGTCAACACGCAACACGACACGATTAA
14309334 TAACATGTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
42 15 0.42
44 17 0.47
45 4 0.11
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (42 bp):
ACGTTTAATAAACGTGTCAACACGCAACACGACACGATTAAC
Found at i:14309354 original size:17 final size:18
Alignment explanation
Indices: 14309334--14309373 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
14309324 ACACGATTAA
14309334 TAACATG-TTAACACGAT
1 TAACATGTTTAACACGAT
*
14309351 TAACATGTTTAACACGTT
1 TAACATGTTTAACACGAT
14309369 TAACA
1 TAACA
14309374 CGATTAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (18 bp):
TAACATGTTTAACACGAT
Found at i:14309355 original size:9 final size:9
Alignment explanation
Indices: 14309341--14309380 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
14309331 TAATAACATG
14309341 TTAACACGA
1 TTAACACGA
* *
14309350 TTAACATGT
1 TTAACACGA
*
14309359 TTAACACGT
1 TTAACACGA
14309368 TTAACACGA
1 TTAACACGA
14309377 TTAA
1 TTAA
14309381 ATAAAAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (9 bp):
TTAACACGA
Found at i:14321996 original size:28 final size:28
Alignment explanation
Indices: 14321964--14322024 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
14321954 GATATTAATG
* *
14321964 AAGAACACAAATA-TCTATAATAATGTTC
1 AAGAACACAAACATTC-ATAATAATATTC
*
14321992 AAGAACACAAACATTCATAATAATATTG
1 AAGAACACAAACATTCATAATAATATTC
14322020 AAGAA
1 AAGAA
14322025 TGCAAGCATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.54, C:0.13, G:0.08, T:0.25
Consensus pattern (28 bp):
AAGAACACAAACATTCATAATAATATTC
Found at i:14343288 original size:86 final size:86
Alignment explanation
Indices: 14343143--14343977 Score: 1054
Period size: 85 Copynumber: 9.6 Consensus size: 86
14343133 GGGTCGTGAC
* * *
14343143 ACTAATAAATGTAAAATAAATTTATATTAATTAAACTATGATGCAAAGTTAAATATATAAAATTT
1 ACTAATAAATGTAAAATAAATTTATATTACTTGAACTATGATGCAAACTTAAATATATAAAATTT
*
14343208 TTATATTAATTGAACTTGTAA
66 TTATATTAGTTGAACTTGTAA
* * * *
14343229 ACTAATAAATATAAAATTAATTTATATTACTTAAACTATGATGCAAATTTAAATATATAAAATTT
1 ACTAATAAATGTAAAATAAATTTATATTACTTGAACTATGATGCAAACTTAAATATATAAAATTT
**
14343294 TTATAGCAGTTGAACTTGTAA
66 TTATATTAGTTGAACTTGTAA
* * * *
14343315 ATTAAAAAATGTAAAATAAATTTATATTACTTGAACTATTATGCAAACTT-AATATATACAATTT
1 ACTAATAAATGTAAAATAAATTTATATTACTTGAACTATGATGCAAACTTAAATATATAAAATTT
*
14343379 TTATAGTAGTTGAACTTGTAA
66 TTATATTAGTTGAACTTGTAA
* * * * * *
14343400 ATTAAAAAAAGTAAAATAAAATTACATTACTTGAACTATGATGCAAACTT-AATATATAAAATAT
1 ACTAATAAATGTAAAATAAATTTATATTACTTGAACTATGATGCAAACTTAAATATATAAAATTT
*
14343464 TTATAGTAGTTGAACTTGTAA
66 TTATATTAGTTGAACTTGTAA
* * * *
14343485 ATTAA-AAATATAAAATAAATTTACATTACTTAAACTATGATGCAAACTT-AATATATAAAATTT
1 ACTAATAAATGTAAAATAAATTTATATTACTTGAACTATGATGCAAACTTAAATATATAAAATTT
14343548 TTATATTAGTTGAACTTGTAA
66 TTATATTAGTTGAACTTGTAA
* * * *
14343569 ACTAACAAATGTAAAATATATTTATATTA-TTGGAACTACGATACAAACTTAAATATATAAAATT
1 ACTAATAAATGTAAAATAAATTTATATTACTT-GAACTATGATGCAAACTTAAATATATAAAATT
*
14343633 TTTATATTAGTTGAACTTATAA
65 TTTATATTAGTTGAACTTGTAA
* * *
14343655 ACTAATAAATCTAAAATAAATTTATATTACTTGAACTATGATGCAAACTT-AGTTTATAAAATTT
1 ACTAATAAATGTAAAATAAATTTATATTACTTGAACTATGATGCAAACTTAAATATATAAAATTT
14343719 TTATATTAGTTGAACTTGTAA
66 TTATATTAGTTGAACTTGTAA
* * *
14343740 ACTAGTAAATGTAAAATATATTTATATTACTTGAACTATGATGCAAACTTAAATATATAAATTTT
1 ACTAATAAATGTAAAATAAATTTATATTACTTGAACTATGATGCAAACTTAAATATATAAAATTT
*
14343805 TTATATTAATTGAACTTGTAATTTGTAA
66 TTATATT-A--G---TTG-AACTTGTAA
* * * *
14343833 ACTAATAAATGTAAAATTAATTTATATTACTTGAACTATGAAGTAAACTTAAATATA-AAATTTT
1 ACTAATAAATGTAAAATAAATTTATATTACTTGAACTATGATGCAAACTTAAATATATAAA-ATT
14343897 TTTATATTAGTTGAACTCGTAACTTGTAA
65 TTTATATTAG-T----T-G-AACTTGTAA
* * * * *
14343926 ACCAATAAATGTAAAATTAATTTATATTACTCGAACTATAATGCAAATTTAA
1 ACTAATAAATGTAAAATAAATTTATATTACTTGAACTATGATGCAAACTTAA
14343978 TAACATATCA
Statistics
Matches: 667, Mismatches: 64, Indels: 29
0.88 0.08 0.04
Matches are distributed among these distances:
84 79 0.12
85 231 0.35
86 216 0.32
87 3 0.00
88 1 0.00
89 1 0.00
90 1 0.00
92 8 0.01
93 127 0.19
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (86 bp):
ACTAATAAATGTAAAATAAATTTATATTACTTGAACTATGATGCAAACTTAAATATATAAAATTT
TTATATTAGTTGAACTTGTAA
Found at i:14343439 original size:171 final size:171
Alignment explanation
Indices: 14343149--14343977 Score: 1013
Period size: 171 Copynumber: 4.8 Consensus size: 171
14343139 TGACACTAAT
* * *
14343149 AAATGTAAAATAAATTTATATTAATTAAACTATGATGCAAAGTTAAATATATAAAATTTTTATAT
1 AAATGTAAAATAAATTTATATTACTTGAACTATGATGCAAACTT-AATATATAAAATTTTTATAT
* * * * *
14343214 TAATTGAACTTGTAAACTAATAAATA-TAAAATTAATTTATATTACTTAAACTATGATGCAAATT
65 TAGTTGAACTTGTAAACTAA-AAAAAGTAAAATAAATTTATATTACTTGAACTATGATGCAAACT
*
14343278 TAAATATATAAAATTTTTATAGCAGTTGAACTTGTAAATTAAA
129 TAAATATATAAAATTTTTATAGTAGTTGAACTTGTAAATTAAA
* * *
14343321 AAATGTAAAATAAATTTATATTACTTGAACTATTATGCAAACTTAATATATACAATTTTTATAGT
1 AAATGTAAAATAAATTTATATTACTTGAACTATGATGCAAACTTAATATATAAAATTTTTATATT
* * *
14343386 AGTTGAACTTGTAAATTAAAAAAAGTAAAATAAAATTACATTACTTGAACTATGATGCAAACTT-
66 AGTTGAACTTGTAAACTAAAAAAAGTAAAATAAATTTATATTACTTGAACTATGATGCAAACTTA
*
14343450 AATATATAAAATATTTATAGTAGTTGAACTTGTAAATT-AA
131 AATATATAAAATTTTTATAGTAGTTGAACTTGTAAATTAAA
* * *
14343490 AAATATAAAATAAATTTACATTACTTAAACTATGATGCAAACTTAATATATAAAATTTTTATATT
1 AAATGTAAAATAAATTTATATTACTTGAACTATGATGCAAACTTAATATATAAAATTTTTATATT
* * * * *
14343555 AGTTGAACTTGTAAACTAACAAATGTAAAATATATTTATATTA-TTGGAACTACGATACAAACTT
66 AGTTGAACTTGTAAACTAAAAAAAGTAAAATAAATTTATATTACTT-GAACTATGATGCAAACTT
* * * *
14343619 AAATATATAAAATTTTTATATTAGTTGAACTTATAAACTAAT
130 AAATATATAAAATTTTTATAGTAGTTGAACTTGTAAATTAAA
* * *
14343661 AAATCTAAAATAAATTTATATTACTTGAACTATGATGCAAACTTAGTTTATAAAATTTTTATATT
1 AAATGTAAAATAAATTTATATTACTTGAACTATGATGCAAACTTAATATATAAAATTTTTATATT
** * *
14343726 AGTTGAACTTGTAAACTAGTAAATGTAAAATATATTTATATTACTTGAACTATGATGCAAACTTA
66 AGTTGAACTTGTAAACTAAAAAAAGTAAAATAAATTTATATTACTTGAACTATGATGCAAACTTA
* * * *
14343791 AATATATAAATTTTTTATATTAATTGAACTTGTAATTTGTAAACTAA
131 AATATATAAAATTTTTATAGTAGTTGAACTTGTAA-AT-T--A--AA
* * *
14343838 TAAATGTAAAATTAATTTATATTACTTGAACTATGAAGTAAACTTAA-ATATAAAATTTTTTTAT
1 -AAATGTAAAATAAATTTATATTACTTGAACTATGATGCAAACTTAATATATAAAA--TTTTTAT
* * * *
14343902 ATTAGTTGAACTCGT-AACTTGTAAACCAATAAATGTAAAATTAATTTATATTACTCGAACTATA
63 ATTAGTTGAACTTGTAAAC---T-AA--AA-AAA-GTAAAATAAATTTATATTACTTGAACTATG
*
14343966 ATGCAAATTTAA
120 ATGCAAACTTAA
14343978 TAACATATCA
Statistics
Matches: 570, Mismatches: 65, Indels: 30
0.86 0.10 0.05
Matches are distributed among these distances:
168 2 0.00
169 114 0.20
170 74 0.13
171 221 0.39
172 42 0.07
173 1 0.00
175 1 0.00
177 8 0.01
178 44 0.08
179 21 0.04
181 1 0.00
182 1 0.00
184 1 0.00
185 2 0.00
186 37 0.06
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (171 bp):
AAATGTAAAATAAATTTATATTACTTGAACTATGATGCAAACTTAATATATAAAATTTTTATATT
AGTTGAACTTGTAAACTAAAAAAAGTAAAATAAATTTATATTACTTGAACTATGATGCAAACTTA
AATATATAAAATTTTTATAGTAGTTGAACTTGTAAATTAAA
Found at i:14343858 original size:49 final size:47
Alignment explanation
Indices: 14343729--14343964 Score: 213
Period size: 49 Copynumber: 5.0 Consensus size: 47
14343719 TTATATTAGT
14343729 TGAACTTGTAAACTAGTAAATGTAAAA-TATATTTATATTACTTGAACTA
1 TGAA-TTGTAAACTA-TAAATGTAAAATTA-ATTTATATTACTTGAACTA
* * * *
14343778 TG-A-TGCAAACT-TAAATATATAAATT-TTTTATATTAATTGAACT-
1 TGAATTGTAAACTATAAATGTA-AAATTAATTTATATTACTTGAACTA
14343821 TGTAATTTGTAAACTAATAAATGTAAAATTAATTTATATTACTTGAACTA
1 TG-AA-TTGTAAACT-ATAAATGTAAAATTAATTTATATTACTTGAACTA
* ** *
14343871 TGAA--GTAAACT-TAAATATAAAATTTTTTTATATTAGTTGAACT-
1 TGAATTGTAAACTATAAATGTAAAATTAATTTATATTACTTGAACTA
* * *
14343914 CGTAACTTGTAAACCAATAAATGTAAAATTAATTTATATTACTCGAACTA
1 TG-AA-TTGTAAA-CTATAAATGTAAAATTAATTTATATTACTTGAACTA
14343964 T
1 T
14343965 AATGCAAATT
Statistics
Matches: 150, Mismatches: 20, Indels: 33
0.74 0.10 0.16
Matches are distributed among these distances:
43 3 0.02
44 53 0.35
45 4 0.03
46 15 0.10
47 12 0.08
48 7 0.05
49 54 0.36
50 2 0.01
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (47 bp):
TGAATTGTAAACTATAAATGTAAAATTAATTTATATTACTTGAACTA
Found at i:14343892 original size:44 final size:46
Alignment explanation
Indices: 14343148--14343964 Score: 298
Period size: 44 Copynumber: 18.7 Consensus size: 46
14343138 GTGACACTAA
* * * * *
14343148 TAAATGTAAAATAAATTTATATTAATTAAACTATG--ATGCAAAGT
1 TAAATGTAAAATTAATTTATATTACTTGAACTATGTAATGTAAACT
* * **
14343192 TAAATATATAAAATT--TTTATATTAATTGAACT-TGTAAACT-AA--
1 T-AA-ATGTAAAATTAATTTATATTACTTGAACTATGTAATGTAAACT
* * * *
14343234 TAAATATAAAATTAATTTATATTACTTAAACTATG--ATGCAAATT
1 TAAATGTAAAATTAATTTATATTACTTGAACTATGTAATGTAAACT
* ** *
14343278 TAAATATATAAAATT--TTTATAGCAGTTGAACT-TGTAAAT-TAAA--
1 T-AA-ATGTAAAATTAATTTATATTACTTGAACTATGT-AATGTAAACT
* *
14343321 -AAATGTAAAATAAATTTATATTACTTGAACTAT-T-ATGCAAACT
1 TAAATGTAAAATTAATTTATATTACTTGAACTATGTAATGTAAACT
* * * *
14343364 TAATATATACAATT--TTTATAGTAGTTGAACT-TGTAAAT-TAAA--
1 TAA-ATGTAAAATTAATTTATATTACTTGAACTATGT-AATGTAAACT
* * * * *
14343406 -AAAAGTAAAATAAAATTACATTACTTGAACTATG--ATGCAAACT
1 TAAATGTAAAATTAATTTATATTACTTGAACTATGTAATGTAAACT
* * *
14343449 TAATATATAAAA-T-ATTTATAGTAGTTGAACT-TGTAAAT-T-AA--
1 TAA-ATGTAAAATTAATTTATATTACTTGAACTATGT-AATGTAAACT
* * * * *
14343490 -AAATATAAAATAAATTTACATTACTTAAACTATG--ATGCAAACT
1 TAAATGTAAAATTAATTTATATTACTTGAACTATGTAATGTAAACT
* * **
14343533 TAATATATAAAATT--TTTATATTAGTTGAACT-TGTAAACT-AAC-
1 TAA-ATGTAAAATTAATTTATATTACTTGAACTATGTAATGTAAACT
* **
14343575 -AAATGTAAAA-TATATTTATATTA-TTGGAACTACG--ATACAAACT
1 TAAATGTAAAATTA-ATTTATATTACTT-GAACTATGTAATGTAAACT
* * * **
14343618 TAAATATATAAAATT--TTTATATTAGTTGAACT-TATAAACT-AA--
1 T-AA-ATGTAAAATTAATTTATATTACTTGAACTATGTAATGTAAACT
* * *
14343660 TAAATCTAAAATAAATTTATATTACTTGAACTATG--ATGCAAACT
1 TAAATGTAAAATTAATTTATATTACTTGAACTATGTAATGTAAACT
** * * ** *
14343704 TAGTTTATAAAATT--TTTATATTAGTTGAACT-TGTAAACT--A-G
1 TA-AATGTAAAATTAATTTATATTACTTGAACTATGTAATGTAAACT
*
14343745 TAAATGTAAAA-TATATTTATATTACTTGAACTATG--ATGCAAACT
1 TAAATGTAAAATTA-ATTTATATTACTTGAACTATGTAATGTAAACT
* * *
14343789 TAAATATATAAATT-TTTTATATTAATTGAACT-TGTAATTTGTAAACT
1 TAAATGTA-AAATTAATTTATATTACTTGAACTATGTAA--TGTAAACT
14343836 AATAAATGTAAAATTAATTTATATTACTTGAACTATG-AA-GTAAACT
1 --TAAATGTAAAATTAATTTATATTACTTGAACTATGTAATGTAAACT
* ** * * *
14343882 TAAATATAAAATTTTTTTATATTAGTTGAACT-CGTAACTTGTAAACCAA
1 TAAATGTAAAATTAATTTATATTACTTGAACTATGTAA--TGTAAA-C-T
*
14343931 TAAATGTAAAATTAATTTATATTACTCGAACTAT
1 TAAATGTAAAATTAATTTATATTACTTGAACTAT
14343965 AATGCAAATT
Statistics
Matches: 566, Mismatches: 112, Indels: 184
0.66 0.13 0.21
Matches are distributed among these distances:
39 12 0.02
40 51 0.09
41 40 0.07
42 108 0.19
43 82 0.14
44 115 0.20
45 50 0.09
46 35 0.06
47 13 0.02
48 6 0.01
49 52 0.09
50 2 0.00
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.40
Consensus pattern (46 bp):
TAAATGTAAAATTAATTTATATTACTTGAACTATGTAATGTAAACT
Found at i:14343898 original size:93 final size:93
Alignment explanation
Indices: 14343143--14343977 Score: 649
Period size: 86 Copynumber: 9.6 Consensus size: 93
14343133 GGGTCGTGAC
* * * * * *
14343143 ACTAATAAATGTAAAATAAATTTATATTAATTAAACTATGATGCAAAGTTAAATATATAAAATTT
1 ACTAATAAATGTAAAATTAATTTATATTACTTGAACTATGAAGCAAACTTAAATATATAAATTTT
14343208 TTATATTAA-T----T-G-AACTTGTAA
66 TTATATTAATTGAACTCGTAACTTGTAA
* * * * *
14343229 ACTAATAAATATAAAATTAATTTATATTACTTAAACTATGATGCAAATTTAAATATATAAA-ATT
1 ACTAATAAATGTAAAATTAATTTATATTACTTGAACTATGAAGCAAACTTAAATATATAAATTTT
* * *
14343293 TT-TA-T-A--GCAGTTG-AACTTGTAA
66 TTATATTAATTGAACTCGTAACTTGTAA
* * * * *
14343315 ATTAAAAAATGTAAAATAAATTTATATTACTTGAACTATTATGCAAACTT-AATATATACAA-TT
1 ACTAATAAATGTAAAATTAATTTATATTACTTGAACTATGAAGCAAACTTAAATATATA-AATTT
* * * *
14343378 TTTATAGTAGTTGAACTTGTAA-AT-T-A
65 TTTATATTAATTGAACTCGTAACTTGTAA
* * * * * *
14343404 A--AA-AAA-GTAAAATAAAATTACATTACTTGAACTATGATGCAAACTT-AATATATAAAATAT
1 ACTAATAAATGTAAAATTAATTTATATTACTTGAACTATGAAGCAAACTTAAATATATAAATTTT
* *
14343464 TTATAGT-A--G---TTG-AACTTGTAA
66 TTATATTAATTGAACTCGTAACTTGTAA
* * * * * * *
14343485 ATTAA-AAATATAAAATAAATTTACATTACTTAAACTATGATGCAAACTT-AATATATAAAATTT
1 ACTAATAAATGTAAAATTAATTTATATTACTTGAACTATGAAGCAAACTTAAATATATAAATTTT
*
14343548 TTATATT-A--G---TTG-AACTTGTAA
66 TTATATTAATTGAACTCGTAACTTGTAA
* * *
14343569 ACTAACAAATGTAAAA-TATATTTATATTA-TTGGAACTACGATA-CAAACTTAAATATATAAAA
1 ACTAATAAATGTAAAATTA-ATTTATATTACTT-GAACTATGA-AGCAAACTTAAATATATAAAT
*
14343631 TTTTTATATTAGTTGAACT--T-A----TAA
63 TTTTTATATTAATTGAACTCGTAACTTGTAA
* * * * * *
14343655 ACTAATAAATCTAAAATAAATTTATATTACTTGAACTATGATGCAAACTT-AGTTTATAAAATTT
1 ACTAATAAATGTAAAATTAATTTATATTACTTGAACTATGAAGCAAACTTAAATATATAAATTTT
*
14343719 TTATATT-A--G---TTG-AACTTGTAA
66 TTATATTAATTGAACTCGTAACTTGTAA
* *
14343740 ACTAGTAAATGTAAAA-TATATTTATATTACTTGAACTATGATGCAAACTTAAATATATAAATTT
1 ACTAATAAATGTAAAATTA-ATTTATATTACTTGAACTATGAAGCAAACTTAAATATATAAATTT
* *
14343804 TTTATATTAATTGAACTTGTAATTTGTAA
65 TTTATATTAATTGAACTCGTAACTTGTAA
*
14343833 ACTAATAAATGTAAAATTAATTTATATTACTTGAACTATGAAGTAAACTTAAATATA-AAATTTT
1 ACTAATAAATGTAAAATTAATTTATATTACTTGAACTATGAAGCAAACTTAAATATATAAA-TTT
*
14343897 TTTATATTAGTTGAACTCGTAACTTGTAA
65 TTTATATTAATTGAACTCGTAACTTGTAA
* * *
14343926 ACCAATAAATGTAAAATTAATTTATATTACTCGAACTAT-AATGCAAATTTAA
1 ACTAATAAATGTAAAATTAATTTATATTACTTGAACTATGAA-GCAAACTTAA
14343978 TAACATATCA
Statistics
Matches: 635, Mismatches: 61, Indels: 99
0.80 0.08 0.12
Matches are distributed among these distances:
78 2 0.00
79 5 0.01
80 1 0.00
81 3 0.00
82 3 0.00
83 6 0.01
84 82 0.13
85 166 0.26
86 200 0.31
87 8 0.01
88 1 0.00
89 4 0.01
90 2 0.00
91 6 0.01
92 11 0.02
93 133 0.21
94 2 0.00
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (93 bp):
ACTAATAAATGTAAAATTAATTTATATTACTTGAACTATGAAGCAAACTTAAATATATAAATTTT
TTATATTAATTGAACTCGTAACTTGTAA
Found at i:14344386 original size:34 final size:34
Alignment explanation
Indices: 14344348--14344424 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 34
14344338 TTCTGTTTTG
*
14344348 AACCTTTCCATTAGGCTAAAATGGCGTTG-TTCTC
1 AACCTTTCCATTAGGCTAAAATGGCGCTGTTTC-C
* *
14344382 AACCTTTCTATTAGGCTAAAATGGTGCTGTTTCC
1 AACCTTTCCATTAGGCTAAAATGGCGCTGTTTCC
14344416 AACCTTTCC
1 AACCTTTCC
14344425 TTCCAACAGG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
34 35 0.92
35 3 0.08
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (34 bp):
AACCTTTCCATTAGGCTAAAATGGCGCTGTTTCC
Found at i:14344457 original size:2 final size:2
Alignment explanation
Indices: 14344450--14344485 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
14344440 GCTCAAACCC
14344450 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14344486 CCTCATTTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14344965 original size:105 final size:102
Alignment explanation
Indices: 14344825--14345336 Score: 622
Period size: 105 Copynumber: 5.0 Consensus size: 102
14344815 TTTTTTTTGA
* * *
14344825 ATTTTCTTGCTCAGACAATGCGGTAGAATTTTTGCTGGCATTTGGTCTGTTGATAGTAAAGGATT
1 ATTTTCTTGCTCAGACAATG-GGTAGAATTTTTGCTGGCATTTGGGCTGTTGATGGTAAGGGATT
*
14344890 AAAAGATTGCAATGCTCATGATTTTGCTGCAATCTTTTTC
65 -AAAGATTGCAATGCTCATGATTTTGCTGGAAT-TTTTTC
* * * * *
14344930 AGTTTTGTTGCTCAGATAATGAGTAGAATTTTTGCTAGCATCTGGG-TCGTTGATGGTAAGGGAT
1 A-TTTTCTTGCTCAGACAATGGGTAGAATTTTTGCTGGCATTTGGGCT-GTTGATGGTAAGGGAT
* * *
14344994 TAAAGATAGCAATGCTCATGATTTTGTTGGAATTTTTGC
64 TAAAGATTGCAATGCTCATGATTTTGCTGGAATTTTTTC
* * * *
14345033 ATTTTCTTGCTCAGACAGTGGGGTAGAATTTTTGCTAGCATTTTGGCTTTTGATGGTAAGGGATT
1 ATTTTCTTGCTCAGACAAT-GGGTAGAATTTTTGCTGGCATTTGGGCTGTTGATGGTAAGGGATT
* *
14345098 AAAGATTGCAATGCTCATGATTTTGTTGGAATTTTTTTTT
65 AAAGATTGCAATGCTCATGATTTTGCTGGAA--TTTTTTC
* * * * *
14345138 ATTTTCTTGTTCAAACAATGTGTTAGAATTTTTGCTGGCATTTGGGCTATTGATGGTAAGGGATG
1 ATTTTCTTGCTCAGACAATG-GGTAGAATTTTTGCTGGCATTTGGGCTGTTGATGGTAAGGGATT
* *
14345203 AAAGATTGCACTGCTTATGATTTTGCTGGAA---TTT-
65 AAAGATTGCAATGCTCATGATTTTGCTGGAATTTTTTC
* * * *
14345237 -TTTTCTTTCTCAAACAATGTGGTAGAATTTTTGCTGGCATATGGGCTGTTGATGGTAAAGGATT
1 ATTTTCTTGCTCAGACAATG-GGTAGAATTTTTGCTGGCATTTGGGCTGTTGATGGTAAGGGATT
*
14345301 AAAGATTGAAATGCTCATGATTTTGCTGGAATTTTT
65 AAAGATTGCAATGCTCATGATTTTGCTGGAATTTTT
14345337 CTTTTGGTTA
Statistics
Matches: 354, Mismatches: 43, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
98 85 0.24
100 3 0.01
101 2 0.01
102 15 0.04
103 75 0.21
104 32 0.09
105 125 0.35
106 17 0.05
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.41
Consensus pattern (102 bp):
ATTTTCTTGCTCAGACAATGGGTAGAATTTTTGCTGGCATTTGGGCTGTTGATGGTAAGGGATTA
AAGATTGCAATGCTCATGATTTTGCTGGAATTTTTTC
Found at i:14345193 original size:208 final size:207
Alignment explanation
Indices: 14344818--14345341 Score: 668
Period size: 208 Copynumber: 2.5 Consensus size: 207
14344808 CTTTTTTTTT
*
14344818 TTTTTGAATTTTCTTGCTCAGACAATGCGGTAGAATTTTTGCTGGCA-TTTGGTCTGTTGATAGT
1 TTTTTG-ATTTTCTTGCTCAGACAATGCGGTAGAATTTTTGCTGGCATTTTGG-CTGTTGATGGT
* * * * *
14344882 AAAGGATTAAAAGATTGCAATGCTCATGATTTTGCTGCAA-TCTTTTTCAGTTTTGTTGCTCAGA
64 AAAGGATT-AAAGATTGCAATGCTCATGATTTTGCTGGAATTTTTTTTTAGTTTTCTTGCTCAAA
* * *
14344946 TAATGAGTAGAATTTTTGCTAGCATCTGGGTCGTTGATGGTAAGGGATTAAAGATAGCAATGCTC
128 CAATGAGTAGAATTTTTGCTAGCATCTGGGTCATTGATGGTAAGGGATGAAAGATAGCAATGCTC
*
14345011 ATGATTTTGTTGGAA
193 ATGATTTTGCTGGAA
* * * *
14345026 TTTTTGCATTTTCTTGCTCAGACAGTGGGGTAGAATTTTTGCTAGCATTTTGGCTTTTGATGGTA
1 TTTTTG-ATTTTCTTGCTCAGACAATGCGGTAGAATTTTTGCTGGCATTTTGGCTGTTGATGGTA
* * *
14345091 AGGGATTAAAGATTGCAATGCTCATGATTTTGTTGGAATTTTTTTTTA-TTTTCTTGTTCAAACA
65 AAGGATTAAAGATTGCAATGCTCATGATTTTGCTGGAATTTTTTTTTAGTTTTCTTGCTCAAACA
* * * * * *
14345155 ATGTGTTAGAATTTTTGCTGGCATTTGGG-CTATTGATGGTAAGGGATGAAAGATTGCACTGCTT
130 ATGAG-TAGAATTTTTGCTAGCATCTGGGTC-ATTGATGGTAAGGGATGAAAGATAGCAATGCTC
14345219 ATGATTTTGCTGGAA
193 ATGATTTTGCTGGAA
* * * * *
14345234 --TTT--TTTTCTTTCTCAAACAATGTGGTAGAATTTTTGCTGGCATATGGGCTGTTGATGGTAA
1 TTTTTGATTTTCTTGCTCAGACAATGCGGTAGAATTTTTGCTGGCATTTTGGCTGTTGATGGTAA
*
14345295 AGGATTAAAGATTGAAATGCTCATGATTTTGCTGGAATTTTTCTTTT
66 AGGATTAAAGATTGCAATGCTCATGATTTTGCTGGAATTTTT-TTTT
14345342 GGTTAGGTGA
Statistics
Matches: 276, Mismatches: 35, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
203 89 0.32
204 4 0.01
206 3 0.01
207 46 0.17
208 129 0.47
209 5 0.02
ACGTcount: A:0.24, C:0.11, G:0.23, T:0.42
Consensus pattern (207 bp):
TTTTTGATTTTCTTGCTCAGACAATGCGGTAGAATTTTTGCTGGCATTTTGGCTGTTGATGGTAA
AGGATTAAAGATTGCAATGCTCATGATTTTGCTGGAATTTTTTTTTAGTTTTCTTGCTCAAACAA
TGAGTAGAATTTTTGCTAGCATCTGGGTCATTGATGGTAAGGGATGAAAGATAGCAATGCTCATG
ATTTTGCTGGAA
Found at i:14347699 original size:35 final size:35
Alignment explanation
Indices: 14347643--14347752 Score: 159
Period size: 35 Copynumber: 3.1 Consensus size: 35
14347633 AGAGATCGAC
14347643 ATAAATGGACTAGAGTTGAGTTATTTACTTTAAAG
1 ATAAATGGACTAGAGTTGAGTTATTTACTTTAAAG
* *
14347678 ATAAATGGACCT-GAGTCGAGTTATTTACTTTAAAA
1 ATAAATGGA-CTAGAGTTGAGTTATTTACTTTAAAG
* * *
14347713 ATAAATGGATTGGAGTTGAGTTATTTACCTTAAAG
1 ATAAATGGACTAGAGTTGAGTTATTTACTTTAAAG
14347748 ATAAA
1 ATAAA
14347753 AAGGGTTGAA
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
34 1 0.01
35 64 0.96
36 2 0.03
ACGTcount: A:0.38, C:0.07, G:0.19, T:0.35
Consensus pattern (35 bp):
ATAAATGGACTAGAGTTGAGTTATTTACTTTAAAG
Found at i:14348777 original size:78 final size:80
Alignment explanation
Indices: 14348675--14348868 Score: 250
Period size: 78 Copynumber: 2.4 Consensus size: 80
14348665 CGTTGATTTC
* * *
14348675 CAAAGTCTGCTTGTTGCAAGCGTATCAAATATCTTAAAATTCTCAAACTCCACTTTTGTAAGTGT
1 CAAAGTCTGCTT-TTGCAAGCGTATCAAATATCTCAAAATTCTCAAACTCCACATTTGCAAGTGT
*
14348740 AT-GTAT-AAAGA-TCT
65 ATAATATCAAA-ATTCT
*
14348754 CAAAGTCTGCTTTTGCAAGCGTATCAAATATCTCAAAATTCTCAAAGTCCACATTTGCAAGTGTA
1 CAAAGTCTGCTTTTGCAAGCGTATCAAATATCTCAAAATTCTCAAACTCCACATTTGCAAGTGTA
*
14348819 TCAAACATTTCAAAATTCT
66 T---A-ATATCAAAATTCT
*
14348838 CAAAGTCCGCTTTTGCAAGCGTATCAAATAT
1 CAAAGTCTGCTTTTGCAAGCGTATCAAATAT
14348869 TTGCATGTTA
Statistics
Matches: 101, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
78 50 0.50
79 12 0.12
83 3 0.03
84 36 0.36
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (80 bp):
CAAAGTCTGCTTTTGCAAGCGTATCAAATATCTCAAAATTCTCAAACTCCACATTTGCAAGTGTA
TAATATCAAAATTCT
Found at i:14348811 original size:42 final size:42
Alignment explanation
Indices: 14348688--14348868 Score: 196
Period size: 42 Copynumber: 4.5 Consensus size: 42
14348678 AGTCTGCTTG
* *
14348688 TTGCAAGCGTATCAAATATCTTAAAATTCTCAAACTCCACTT
1 TTGCAAGCGTATCAAATATCTCAAAATTCTCAAAGTCCACTT
* * * **
14348730 TTGTAAGTGTAT---GTA--T-AAAGA-TCTCAAAGTCTGCTT
1 TTGCAAGCGTATCAAATATCTCAAA-ATTCTCAAAGTCCACTT
*
14348766 TTGCAAGCGTATCAAATATCTCAAAATTCTCAAAGTCCACAT
1 TTGCAAGCGTATCAAATATCTCAAAATTCTCAAAGTCCACTT
* * * *
14348808 TTGCAAGTGTATCAAACATTTCAAAATTCTCAAAGTCCGCTT
1 TTGCAAGCGTATCAAATATCTCAAAATTCTCAAAGTCCACTT
14348850 TTGCAAGCGTATCAAATAT
1 TTGCAAGCGTATCAAATAT
14348869 TTGCATGTTA
Statistics
Matches: 112, Mismatches: 19, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
36 25 0.22
37 2 0.02
39 4 0.04
41 2 0.02
42 79 0.71
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (42 bp):
TTGCAAGCGTATCAAATATCTCAAAATTCTCAAAGTCCACTT
Found at i:14349333 original size:51 final size:52
Alignment explanation
Indices: 14349196--14349372 Score: 254
Period size: 50 Copynumber: 3.5 Consensus size: 52
14349186 CAAACATTGA
**
14349196 CCAAACAAATATCCAAAGTCCAAATCAAATGTATCAAGTCCAAACAT-TGA-
1 CCAAACAAATATCCAAAGTCCAAATCAAATGTATCAAGTCCAAACATCAAAG
* *
14349246 CCAAACAAATATCCAAAGTCCAAATCAAATGTATCAAGCCCAAACGTCAAAG
1 CCAAACAAATATCCAAAGTCCAAATCAAATGTATCAAGTCCAAACATCAAAG
* *
14349298 CCAAACAAATATCCAAA-TTCAAATCAAATGTATCAAGTTCAAACATCAAAG
1 CCAAACAAATATCCAAAGTCCAAATCAAATGTATCAAGTCCAAACATCAAAG
* *
14349349 TCGAACAAATAT-CAAAGTCCAAAT
1 CCAAACAAATATCCAAAGTCCAAAT
14349373 TGTTTATGTT
Statistics
Matches: 113, Mismatches: 11, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
50 49 0.43
51 47 0.42
52 17 0.15
ACGTcount: A:0.49, C:0.24, G:0.08, T:0.19
Consensus pattern (52 bp):
CCAAACAAATATCCAAAGTCCAAATCAAATGTATCAAGTCCAAACATCAAAG
Found at i:14354353 original size:34 final size:33
Alignment explanation
Indices: 14354222--14354353 Score: 83
Period size: 34 Copynumber: 3.9 Consensus size: 33
14354212 TAAATCCTCG
* * * * *
14354222 CAATGCTTTTTCATGGGAGTAAGTTGAACGCTCAA
1 CAATGCTTTTTCACGAGAGCAAG-CGAAC-CTCTA
*
14354257 CAATGC-TTTTCACGAGAGTAAGCGAA-CTCTTAA
1 CAATGCTTTTTCACGAGAGCAAGCGAACCTC-T-A
***
14354290 CAACT-CTTTTTCTTAAGAGCAAATG-GAACCTCTA
1 CAA-TGCTTTTTCACGAGAGC-AA-GCGAACCTCTA
14354324 CAATGCTTTTTCACGAGAGCAAGCAGAACC
1 CAATGCTTTTTCACGAGAGCAAGC-GAACC
14354354 CTTGAACAAT
Statistics
Matches: 76, Mismatches: 11, Indels: 21
0.70 0.10 0.19
Matches are distributed among these distances:
31 3 0.04
32 1 0.01
33 11 0.14
34 45 0.59
35 12 0.16
36 4 0.05
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (33 bp):
CAATGCTTTTTCACGAGAGCAAGCGAACCTCTA
Found at i:14358039 original size:16 final size:17
Alignment explanation
Indices: 14358020--14358052 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14358010 TTAGTTATTT
14358020 TTAG-ATATTTTTATAA
1 TTAGTATATTTTTATAA
*
14358036 TTAGTTTATTTTTATAA
1 TTAGTATATTTTTATAA
14358053 AGTTATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (17 bp):
TTAGTATATTTTTATAA
Found at i:14358060 original size:14 final size:16
Alignment explanation
Indices: 14358025--14358061 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
14358015 TATTTTTAGA
14358025 TATTTTTATAATTAGTT
1 TATTTTTATAA-TAGTT
14358042 TATTTTTATAA-AG-T
1 TATTTTTATAATAGTT
14358056 TATTTT
1 TATTTT
14358062 AATTTTATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 7 0.35
15 2 0.10
17 11 0.55
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (16 bp):
TATTTTTATAATAGTT
Found at i:14364487 original size:2 final size:2
Alignment explanation
Indices: 14364480--14364520 Score: 55
Period size: 2 Copynumber: 20.0 Consensus size: 2
14364470 TCAAAACCTC
* *
14364480 TA TA TA TA TA TA TA TA TA TA TCA TA TA TA AA CA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA
14364521 ACCACCGGCC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:14364506 original size:21 final size:21
Alignment explanation
Indices: 14364481--14364520 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14364471 CAAAACCTCT
* *
14364481 ATATATATATATATATATATC
1 ATATATAAACATATATATATC
14364502 ATATATAAACATATATATA
1 ATATATAAACATATATATA
14364521 ACCACCGGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (21 bp):
ATATATAAACATATATATATC
Found at i:14364507 original size:19 final size:19
Alignment explanation
Indices: 14364483--14364519 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14364473 AAACCTCTAT
* *
14364483 ATATATATATATATATATC
1 ATATATAAACATATATATC
14364502 ATATATAAACATATATAT
1 ATATATAAACATATATAT
14364520 AACCACCGGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (19 bp):
ATATATAAACATATATATC
Found at i:14364595 original size:42 final size:41
Alignment explanation
Indices: 14364549--14364661 Score: 127
Period size: 42 Copynumber: 2.7 Consensus size: 41
14364539 AACTCTGTTT
* * *
14364549 CAGCTTATGTGCATTACCACACCGCACATAGCCGGGTTAGCA
1 CAGCTCATGTGCACT-CCACACCGCACATAGCCGGGTGAGCA
* * *
14364591 CAGCTCATGTGCACTCATACACCGTACATAGCTGGGTGAGCA
1 CAGCTCATGTGCACTC-CACACCGCACATAGCCGGGTGAGCA
* *
14364633 CAACTCATGTGTACTCCTACACCGCACAT
1 CAGCTCATGTGCACTCC-ACACCGCACAT
14364662 GGCTGGGTCA
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.02
42 58 0.98
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (41 bp):
CAGCTCATGTGCACTCCACACCGCACATAGCCGGGTGAGCA
Found at i:14364667 original size:42 final size:42
Alignment explanation
Indices: 14364567--14364669 Score: 143
Period size: 42 Copynumber: 2.5 Consensus size: 42
14364557 GTGCATTACC
* * *
14364567 ACACCGCACATAGCCGGGTTAGCACAGCTCATGTGCACTCAT
1 ACACCGCACATAGCTGGGTGAGCACAACTCATGTGCACTCAT
* * *
14364609 ACACCGTACATAGCTGGGTGAGCACAACTCATGTGTACTCCT
1 ACACCGCACATAGCTGGGTGAGCACAACTCATGTGCACTCAT
*
14364651 ACACCGCACATGGCTGGGT
1 ACACCGCACATAGCTGGGT
14364670 CATAATTATC
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.25, C:0.31, G:0.23, T:0.20
Consensus pattern (42 bp):
ACACCGCACATAGCTGGGTGAGCACAACTCATGTGCACTCAT
Found at i:14370670 original size:13 final size:13
Alignment explanation
Indices: 14370652--14370676 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14370642 TTCCAAAAAA
14370652 TTTATAAAATCAT
1 TTTATAAAATCAT
14370665 TTTATAAAATCA
1 TTTATAAAATCA
14370677 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:14375530 original size:5 final size:5
Alignment explanation
Indices: 14375520--14375556 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
14375510 CTTTTCTACC
*
14375520 TAACT TGACT TAACT TAAC- TAACT TAACT TAACT TAA
1 TAACT TAACT TAACT TAACT TAACT TAACT TAACT TAA
14375557 TTTGGGCCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.38
Consensus pattern (5 bp):
TAACT
Found at i:14375543 original size:19 final size:19
Alignment explanation
Indices: 14375519--14375556 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
14375509 TCTTTTCTAC
*
14375519 CTAACTTGACTTAACTTAA
1 CTAACTTAACTTAACTTAA
14375538 CTAACTTAACTTAACTTAA
1 CTAACTTAACTTAACTTAA
14375557 TTTGGGCCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.21, G:0.03, T:0.37
Consensus pattern (19 bp):
CTAACTTAACTTAACTTAA
Found at i:14375546 original size:14 final size:14
Alignment explanation
Indices: 14375527--14375553 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14375517 ACCTAACTTG
14375527 ACTTAACTTAACTA
1 ACTTAACTTAACTA
14375541 ACTTAACTTAACT
1 ACTTAACTTAACT
14375554 TAATTTGGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.37
Consensus pattern (14 bp):
ACTTAACTTAACTA
Found at i:14375614 original size:15 final size:15
Alignment explanation
Indices: 14375594--14375639 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
14375584 TTCTTAAAAC
14375594 AACTTTAAAACCAAA
1 AACTTTAAAACCAAA
14375609 AACTTTAAAATCC-AA
1 AACTTTAAAA-CCAAA
* *
14375624 AGCTTTAAAATCAAA
1 AACTTTAAAACCAAA
14375639 A
1 A
14375640 TCTCTTATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 1 0.04
15 24 0.89
16 2 0.07
ACGTcount: A:0.57, C:0.17, G:0.02, T:0.24
Consensus pattern (15 bp):
AACTTTAAAACCAAA
Found at i:14378280 original size:19 final size:19
Alignment explanation
Indices: 14378256--14378293 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
14378246 TTGCCAAACC
*
14378256 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
14378275 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
14378294 AGTTAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Done.